SYNE2
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Also known as SYNE-2DKFZP434H2235Nesprin-2NUANCENUAKIAA1011Nesp2
Summary
SYNE2 (spectrin repeat containing nuclear envelope protein 2, HGNC:17084) is a protein-coding gene on chromosome 14q23.2, encoding Nesprin-2 (Q8WXH0). Multi-isomeric modular protein which forms a linking network between organelles and the actin cytoskeleton to maintain the subcellular spatial organization.
The protein encoded by this gene is a nuclear outer membrane protein that binds cytoplasmic F-actin. This binding tethers the nucleus to the cytoskeleton and aids in the maintenance of the structural integrity of the nucleus. Several transcript variants encoding different isoforms have been found for this gene.
Source: NCBI Gene 23224 — RefSeq curated summary.
At a glance
- Gene–disease (curated): autosomal dominant Emery-Dreifuss muscular dystrophy (Supportive, GenCC) — +2 more curated relationships
- GWAS associations: 40
- Clinical variants (ClinVar): 4,830 total — 2 pathogenic, 9 likely-pathogenic
- Phenotypes (HPO): 55
- MANE Select transcript:
NM_182914
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:17084 |
| Approved symbol | SYNE2 |
| Name | spectrin repeat containing nuclear envelope protein 2 |
| Location | 14q23.2 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2 |
| Ensembl gene | ENSG00000054654 |
| Ensembl biotype | protein_coding |
| OMIM | 608442 |
| Entrez | 23224 |
Gene structure
Transcript identifiers
Ensembl transcripts: 30 — 13 protein_coding, 10 retained_intron, 4 protein_coding_CDS_not_defined, 3 nonsense_mediated_decay
ENST00000341472, ENST00000344113, ENST00000358025, ENST00000394768, ENST00000441438, ENST00000458046, ENST00000553289, ENST00000553308, ENST00000553455, ENST00000553801, ENST00000554584, ENST00000554805, ENST00000554928, ENST00000554997, ENST00000555002, ENST00000555022, ENST00000555241, ENST00000555323, ENST00000555612, ENST00000556342, ENST00000556725, ENST00000557005, ENST00000557024, ENST00000557060, ENST00000557084, ENST00000557307, ENST00000673797, ENST00000673869, ENST00000674003, ENST00000674144
RefSeq mRNA: 4 — MANE Select: NM_182914
NM_015180, NM_182910, NM_182913, NM_182914
CCDS: CCDS41963, CCDS45124, CCDS9761
Canonical transcript exons
ENST00000555002 — 116 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000867632 | 64215286 | 64215354 |
| ENSE00001096692 | 64224999 | 64225045 |
| ENSE00001519510 | 64225319 | 64226433 |
| ENSE00001594289 | 64162072 | 64162276 |
| ENSE00001598402 | 64158625 | 64158795 |
| ENSE00001601416 | 64165285 | 64165410 |
| ENSE00001603647 | 64107491 | 64107607 |
| ENSE00001607109 | 64163402 | 64163581 |
| ENSE00001610442 | 64174944 | 64175138 |
| ENSE00001612097 | 64190071 | 64190237 |
| ENSE00001619054 | 64128452 | 64128553 |
| ENSE00001619167 | 64101932 | 64102042 |
| ENSE00001623473 | 64137787 | 64137983 |
| ENSE00001631920 | 64143772 | 64143948 |
| ENSE00001633394 | 64130048 | 64130248 |
| ENSE00001640777 | 64186424 | 64186579 |
| ENSE00001652130 | 64141942 | 64142088 |
| ENSE00001652314 | 64177358 | 64177483 |
| ENSE00001659947 | 64141341 | 64141523 |
| ENSE00001665015 | 64129782 | 64129901 |
| ENSE00001665252 | 64125079 | 64125210 |
| ENSE00001670571 | 64132265 | 64132438 |
| ENSE00001677997 | 64113341 | 64113571 |
| ENSE00001696524 | 64170228 | 64170462 |
| ENSE00001700703 | 64139941 | 64140073 |
| ENSE00001708092 | 64168877 | 64168971 |
| ENSE00001711173 | 64120927 | 64121061 |
| ENSE00001732589 | 64134069 | 64134200 |
| ENSE00001744976 | 64146068 | 64146223 |
| ENSE00001749033 | 64119427 | 64119609 |
| ENSE00001764955 | 64152564 | 64152716 |
| ENSE00001767513 | 64122286 | 64122427 |
| ENSE00001772049 | 64188550 | 64188708 |
| ENSE00001776856 | 64126327 | 64126479 |
| ENSE00001787995 | 64126598 | 64126807 |
| ENSE00001795486 | 64122012 | 64122133 |
| ENSE00003463868 | 64021857 | 64022028 |
| ENSE00003469297 | 64027484 | 64027793 |
| ENSE00003471963 | 64029895 | 64030059 |
| ENSE00003473768 | 64212811 | 64213005 |
| ENSE00003475958 | 64167233 | 64167387 |
| ENSE00003477241 | 64224461 | 64224547 |
| ENSE00003480782 | 64097949 | 64098146 |
| ENSE00003488550 | 64080456 | 64080638 |
| ENSE00003495443 | 64007043 | 64007222 |
| ENSE00003496751 | 64208758 | 64208945 |
| ENSE00003504065 | 64090866 | 64091048 |
| ENSE00003505134 | 64218398 | 64218512 |
| ENSE00003521999 | 64025130 | 64025421 |
| ENSE00003523604 | 64024912 | 64025031 |
| ENSE00003523808 | 64078466 | 64078606 |
| ENSE00003538264 | 64009966 | 64010116 |
| ENSE00003548243 | 64223189 | 64223380 |
| ENSE00003558407 | 64167495 | 64167639 |
| ENSE00003560700 | 64221576 | 64221704 |
| ENSE00003580204 | 64214194 | 64214470 |
| ENSE00003582628 | 64098747 | 64098821 |
| ENSE00003582707 | 64021315 | 64021515 |
| ENSE00003583954 | 64087671 | 64087856 |
| ENSE00003605849 | 64220437 | 64220637 |
| ENSE00003608236 | 64026579 | 64026730 |
| ENSE00003608984 | 64209428 | 64209578 |
| ENSE00003616991 | 64089574 | 64089696 |
| ENSE00003618051 | 64017595 | 64017756 |
| ENSE00003621284 | 64019992 | 64020093 |
| ENSE00003640381 | 64209942 | 64210124 |
| ENSE00003651003 | 64219208 | 64219410 |
| ENSE00003651855 | 64216248 | 64216387 |
| ENSE00003658277 | 64211961 | 64212098 |
| ENSE00003661936 | 64016473 | 64016631 |
| ENSE00003666926 | 64093349 | 64093480 |
| ENSE00003669144 | 64031016 | 64031357 |
| ENSE00003682802 | 64081443 | 64081580 |
| ENSE00003686272 | 64202801 | 64202963 |
| ENSE00003694652 | 64159312 | 64159442 |
| ENSE00003713021 | 63980986 | 63981173 |
| ENSE00003715418 | 63998219 | 63998328 |
| ENSE00003715538 | 64073968 | 64074136 |
| ENSE00003717768 | 63941885 | 63941962 |
| ENSE00003718231 | 63983737 | 63983886 |
| ENSE00003718266 | 64024257 | 64024459 |
| ENSE00003719042 | 63954719 | 63954915 |
| ENSE00003722527 | 64070645 | 64070910 |
| ENSE00003723546 | 63993835 | 63993969 |
| ENSE00003726581 | 64000562 | 64000719 |
| ENSE00003727704 | 63990411 | 63990569 |
| ENSE00003727913 | 63940614 | 63940675 |
| ENSE00003729163 | 63963899 | 63964000 |
| ENSE00003730474 | 63995044 | 63995202 |
| ENSE00003731273 | 63996947 | 63997158 |
| ENSE00003731521 | 63949825 | 63950006 |
| ENSE00003731772 | 64001934 | 64002081 |
| ENSE00003732437 | 63997301 | 63997391 |
| ENSE00003732492 | 63978852 | 63979014 |
| ENSE00003734185 | 64065432 | 64065650 |
| ENSE00003734903 | 64062751 | 64062895 |
| ENSE00003737812 | 63909098 | 63909227 |
| ENSE00003738446 | 64022751 | 64022863 |
| ENSE00003739200 | 64075945 | 64076100 |
| ENSE00003739475 | 63986456 | 63986617 |
| ENSE00003739980 | 64049611 | 64049876 |
| ENSE00003741067 | 63982630 | 63982794 |
| ENSE00003741877 | 63942051 | 63942143 |
| ENSE00003742298 | 64051557 | 64053657 |
| ENSE00003744604 | 63980654 | 63980732 |
| ENSE00003745400 | 63967709 | 63967846 |
| ENSE00003746234 | 63941695 | 63941790 |
| ENSE00003747979 | 63977905 | 63978017 |
| ENSE00003751386 | 63990942 | 63991115 |
| ENSE00003752290 | 63976563 | 63976727 |
| ENSE00003752649 | 63961525 | 63961625 |
| ENSE00003752734 | 64002720 | 64003330 |
| ENSE00003753415 | 63998914 | 63999040 |
| ENSE00003753551 | 64048000 | 64048155 |
| ENSE00003753807 | 64055944 | 64056266 |
| ENSE00003902714 | 63853004 | 63853143 |
Expression profiles
Bgee: expression breadth ubiquitous, 284 present calls, max score 99.01.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 29.5768 / max 471.4497, expressed in 1513 samples.
FANTOM5 promoters (25 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 140050 | 23.6358 | 1455 |
| 140052 | 2.4755 | 506 |
| 140089 | 0.8197 | 110 |
| 140049 | 0.6378 | 73 |
| 140078 | 0.5772 | 112 |
| 140087 | 0.3760 | 144 |
| 140048 | 0.1995 | 32 |
| 140047 | 0.1345 | 25 |
| 207256 | 0.1236 | 36 |
| 140070 | 0.1172 | 39 |
Top tissues by expression
293 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| ventricular zone | UBERON:0003053 | 99.01 | gold quality |
| skeletal muscle tissue of biceps brachii | UBERON:0004502 | 98.52 | gold quality |
| ganglionic eminence | UBERON:0004023 | 98.43 | gold quality |
| metanephros cortex | UBERON:0010533 | 98.38 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 98.26 | gold quality |
| triceps brachii | UBERON:0001509 | 98.24 | gold quality |
| renal medulla | UBERON:0000362 | 98.10 | gold quality |
| biceps brachii | UBERON:0001507 | 98.04 | gold quality |
| diaphragm | UBERON:0001103 | 97.92 | gold quality |
| colonic epithelium | UBERON:0000397 | 97.73 | gold quality |
| sural nerve | UBERON:0015488 | 97.73 | gold quality |
| left ovary | UBERON:0002119 | 97.72 | gold quality |
| body of tongue | UBERON:0011876 | 97.26 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 97.25 | gold quality |
| right ovary | UBERON:0002118 | 96.94 | gold quality |
| muscle of leg | UBERON:0001383 | 96.90 | gold quality |
| gastrocnemius | UBERON:0001388 | 96.87 | gold quality |
| right lobe of thyroid gland | UBERON:0001119 | 96.84 | gold quality |
| skin of abdomen | UBERON:0001416 | 96.77 | gold quality |
| left lobe of thyroid gland | UBERON:0001120 | 96.73 | gold quality |
| gluteal muscle | UBERON:0002000 | 96.59 | gold quality |
| thyroid gland | UBERON:0002046 | 96.54 | gold quality |
| body of pancreas | UBERON:0001150 | 96.49 | gold quality |
| muscle organ | UBERON:0001630 | 96.38 | gold quality |
| bronchial epithelial cell | CL:0002328 | 96.31 | gold quality |
| right lung | UBERON:0002167 | 96.31 | gold quality |
| right uterine tube | UBERON:0001302 | 96.22 | gold quality |
| skin of leg | UBERON:0001511 | 96.04 | gold quality |
| ovary | UBERON:0000992 | 96.03 | gold quality |
| cortical plate | UBERON:0005343 | 95.89 | gold quality |
Single-cell (SCXA)
Detected in 28 experiment(s), a significant marker in 20.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-CURD-119 | yes | 8265.11 |
| E-MTAB-6678 | yes | 1061.62 |
| E-ENAD-27 | yes | 965.73 |
| E-GEOD-81608 | yes | 759.30 |
| E-MTAB-7407 | yes | 596.22 |
| E-GEOD-149689 | yes | 502.47 |
| E-HCAD-5 | yes | 51.86 |
| E-MTAB-9221 | yes | 48.61 |
| E-CURD-122 | yes | 47.49 |
| E-CURD-88 | yes | 39.19 |
| E-CURD-112 | yes | 38.86 |
| E-HCAD-31 | yes | 33.48 |
| E-GEOD-134144 | yes | 29.22 |
| E-GEOD-137537 | yes | 24.14 |
| E-HCAD-35 | yes | 22.58 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): E2F1
miRNA regulators (miRDB)
53 targeting SYNE2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-4682 | 100.00 | 68.89 | 1258 |
| HSA-MIR-5692B | 100.00 | 71.32 | 2622 |
| HSA-MIR-5692C | 100.00 | 71.32 | 2622 |
| HSA-MIR-4692 | 100.00 | 67.32 | 2066 |
| HSA-MIR-4514 | 99.99 | 67.10 | 1870 |
| HSA-MIR-548C-3P | 99.99 | 74.01 | 7587 |
| HSA-MIR-485-3P | 99.98 | 70.68 | 1585 |
| HSA-MIR-539-3P | 99.98 | 70.74 | 1616 |
| HSA-MIR-9-3P | 99.96 | 70.88 | 2068 |
| HSA-MIR-493-5P | 99.96 | 72.47 | 2382 |
| HSA-MIR-6835-3P | 99.93 | 70.49 | 2904 |
| HSA-MIR-539-5P | 99.93 | 70.30 | 2855 |
| HSA-MIR-374A-5P | 99.90 | 71.34 | 2923 |
| HSA-MIR-374B-5P | 99.90 | 69.98 | 2734 |
| HSA-MIR-182-5P | 99.87 | 74.03 | 2589 |
| HSA-MIR-548AR-3P | 99.85 | 71.26 | 3889 |
| HSA-MIR-548AZ-3P | 99.82 | 70.56 | 3549 |
| HSA-MIR-548BC | 99.82 | 70.61 | 3524 |
| HSA-MIR-548E-3P | 99.82 | 70.59 | 3514 |
| HSA-MIR-548F-3P | 99.82 | 70.59 | 3540 |
| HSA-MIR-323A-3P | 99.79 | 70.30 | 1739 |
| HSA-MIR-548A-3P | 99.76 | 70.58 | 3524 |
| HSA-MIR-4422 | 99.72 | 72.07 | 2908 |
| HSA-MIR-494-3P | 99.70 | 71.45 | 2795 |
| HSA-MIR-2053 | 99.57 | 69.15 | 1635 |
| HSA-MIR-12123 | 99.52 | 71.79 | 2990 |
| HSA-MIR-302B-5P | 99.50 | 69.49 | 1857 |
| HSA-MIR-302D-5P | 99.50 | 69.34 | 1863 |
| HSA-MIR-4735-5P | 99.43 | 68.49 | 1780 |
| HSA-MIR-1276 | 99.36 | 68.18 | 1642 |
Literature-anchored findings (GeneRIF, showing 34)
- Nesprin-2 binds lamin and emerin at the nuclear envelope in skeletal muscle. (PMID:15671068)
- Nesprin-2 has a scaffolding function at the nuclear membrane (PMID:15843432)
- The Nesprin-2 the conserved C-terminal amino acids PPPX is essential for the interaction with a C-terminal region in Sun1. (PMID:16079285)
- The characterisation of the residues both in emerin and in nesprin-1alpha and -2beta which are involved in their interaction is reported. (PMID:17462627)
- Screening for DNA variations in the genes encoding nesprin-1 (SYNE1) and nesprin-2 (SYNE2) in 190 probands with Emery Dreifuss muscular dystrophy identified four heterozygous missense mutations. (PMID:17761684)
- propose nesprin-2 giant as a structural reinforcer at the nuclear envelope in LMNA S143F progeria cells (PMID:17881656)
- Nesprin-2 is an important scaffold protein implicated in the maintenance of nuclear envelope architecture. (PMID:18477613)
- association with human nesprin-3 appeared to be stronger for torsinADeltaE than for torsinA. TorsinA also associated with the KASH domains of nesprin-1 and -2 (PMID:18827015)
- Novel nuclear nesprin-2 variants tether active extracellular signal-regulated MAPK1 and MAPK2 at promyelocytic leukemia protein nuclear bodies and act to regulate smooth muscle cell proliferation. (PMID:19861416)
- Nesprins, but not sun proteins, switch isoforms at the nuclear envelope during muscle development (PMID:20108321)
- Nesprin-2 interacts with {alpha}-catenin and regulates Wnt signaling at the nuclear envelope. (PMID:20801886)
- novel isoform, nesprin-2-epsilon, was found to be the major mRNA and protein product of the nesprin-2 gene. (PMID:21820406)
- Study presents crystal structures of the human SUN2-KASH1/2 complex, i.e. SUN2 complexed with the C-terminal 29 residues of human Nesprin-1 or -2 (the core of the LINC complex). (PMID:22632968)
- Multiple novel nesprin-1 and nesprin-2 variants act as versatile tissue-specific intracellular scaffolds. (PMID:22768332)
- ectopic expression of BRAP2 inhibits nuclear localization of HMG20A and NuMA1, and prevents nuclear envelope accumulation of SYNE2. (PMID:23707952)
- Each mutation in LMNA has a distinct impact on the Nersprin-2 interaction that substantially explains how distinct mutations in widely expressed genes lead to the formation of phenotypically different diseases. (PMID:23977161)
- High Nesprin-2 expression is associated with colorectal cancer. (PMID:24080406)
- The significance of these shorter isoforms of nesprin, were evaluated. (PMID:24718612)
- nesprin-1 and nesprin-2 both regulate nuclear and cytoplasmic architecture. (PMID:24931616)
- nesprin-dependent recruitment of kinesin-1 to the nuclear envelope through the interaction of a conserved LEWD motif with kinesin light chain might be a general mechanism for cell-type-specific nuclear positioning during development. (PMID:25516977)
- We show that AMPH-1/BIN1 binds to nesprin and actin, as well as to the microtubule-binding protein CLIP170 in both species. We propose that BIN1 has a direct and evolutionarily conserved role in nuclear positioning, altered in myopathies. (PMID:26506308)
- these data identify N-terminal nesprin-2 variants as novel regulators of beta-catenin signaling. (PMID:27321956)
- variants of EGFR and SYNE2 play an important role in p21 regulation and are associated with the clinical outcome of HBV-related hepatocellular carcinoma in a TP53-indenpdent manner (PMID:27502069)
- The authors identified the nuclear envelope protein nesprin-2 as a binding partner for fascin in a range of cell types in vitro and in vivo. Nesprin-2 interacts with fascin through a direct, F-actin-independent interaction, and this binding is distinct and separable from a role for fascin within filopodia at the cell periphery. (PMID:27554857)
- Study shows that modulation of matrix pore size or of lamin A expression known to modulate nuclear stiffness directly impinges on levels of MT1-MMP-mediated pericellular collagenolysis by cancer cells. This response requires an intact connection between the nucleus and the centrosome via the linker of nucleoskeleton and cytoskeleton (LINC) complex protein nesprin-2 and dynein adaptor Lis1. (PMID:29934494)
- CRISPR/Cas9-mediated knockout of Syne-2 in cell culture led to an overexpression and mislocalization of Pcnt and to ciliogenesis defects. This suggests that the Pcnt-Syne-2 complex is important for ciliogenesis and outer segment formation during retinal development and plays a role in nuclear migration. (PMID:30054381)
- Results indicate that sperm associated antigen 4 (SPAG4L/SPAG4Lbeta) transcript isoform interacts with spectrin repeat containing nuclear envelope protein 2 (Nesprin2) in the meiotic process. (PMID:31144711)
- Nesprin-1-alpha2 associates with kinesin at myotube outer nuclear membranes, but is restricted to neuromuscular junction nuclei in adult muscle. (PMID:31578382)
- A novel SYNE2 mutation identified by whole exome sequencing in a Korean family with Emery-Dreifuss muscular dystrophy. (PMID:32184094)
- Structures of FHOD1-Nesprin1/2 complexes reveal alternate binding modes for the FH3 domain of formins. (PMID:33472039)
- The SUN2-nesprin-2 LINC complex and KIF20A function in the Golgi dispersal. (PMID:33686165)
- Silencing of Nesprin-2 inhibits the differentiation of myofibroblasts from fibroblasts induced by mechanical stretch. (PMID:34558192)
- Role of Nesprin-2 and RanBP2 in BICD2-associated brain developmental disorders. (PMID:36930595)
- Mena regulates nesprin-2 to control actin-nuclear lamina associations, trans-nuclear membrane signalling and gene expression. (PMID:36959177)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | syne2b | ENSDARG00000095514 |
| mus_musculus | Syne2 | ENSMUSG00000063450 |
| rattus_norvegicus | Syne2 | ENSRNOG00000005323 |
Paralogs (36): SPTB (ENSG00000070182), ACTN1 (ENSG00000072110), ACTN2 (ENSG00000077522), DSP (ENSG00000096696), DRP2 (ENSG00000102385), SPTBN1 (ENSG00000115306), MACF1 (ENSG00000127603), FLNC (ENSG00000128591), ACTN4 (ENSG00000130402), SYNE1 (ENSG00000131018), MICAL2 (ENSG00000133816), DTNA (ENSG00000134769), MICAL1 (ENSG00000135596), FLNB (ENSG00000136068), SPTBN5 (ENSG00000137877), DTNB (ENSG00000138101), GAS2L3 (ENSG00000139354), DST (ENSG00000151914), UTRN (ENSG00000152818), SPTBN4 (ENSG00000160460), SPTA1 (ENSG00000163554), CLMN (ENSG00000165959), PKHD1 (ENSG00000170927), SPTBN2 (ENSG00000173898), SYNE3 (ENSG00000176438), PLEC (ENSG00000178209), SMTNL2 (ENSG00000188176), FLNA (ENSG00000196924), SPTAN1 (ENSG00000197694), DMD (ENSG00000198947), PKHD1L1 (ENSG00000205038), DYTN (ENSG00000232125), MICAL3 (ENSG00000243156), ACTN3 (ENSG00000248746), EPPK1 (ENSG00000261150), GAS2L2 (ENSG00000270765)
Protein
Protein identifiers
Nesprin-2 — Q8WXH0 (reviewed: Q8WXH0)
Alternative names: KASH domain-containing protein 2, Nuclear envelope spectrin repeat protein 2, Nucleus and actin connecting element protein, Synaptic nuclear envelope protein 2
All UniProt accessions (13): A0A0C4DGK3, A0A1W2PRN9, A0A1W2PS37, A0A669KB22, A0A669KB61, Q8WXH0, A0A669KBG2, A0A669KBH2, G3V2Q0, G3V3D4, G3V4T3, G3V5N1, G3V5X4
UniProt curated annotations — full annotation on UniProt →
Function. Multi-isomeric modular protein which forms a linking network between organelles and the actin cytoskeleton to maintain the subcellular spatial organization. As a component of the LINC (LInker of Nucleoskeleton and Cytoskeleton) complex involved in the connection between the nuclear lamina and the cytoskeleton. The nucleocytoplasmic interactions established by the LINC complex play an important role in the transmission of mechanical forces across the nuclear envelope and in nuclear movement and positioning. Specifically, SYNE2 and SUN2 assemble in arrays of transmembrane actin-associated nuclear (TAN) lines which are bound to F-actin cables and couple the nucleus to retrograde actin flow during actin-dependent nuclear movement. May be involved in nucleus-centrosome attachment. During interkinetic nuclear migration (INM) at G2 phase and nuclear migration in neural progenitors its LINC complex association with SUN1/2 and probable association with cytoplasmic dynein-dynactin motor complexes functions to pull the nucleus toward the centrosome; SYNE1 and SYNE2 may act redundantly. During INM at G1 phase mediates respective LINC complex association with kinesin to push the nucleus away from the centrosome. Involved in nuclear migration in retinal photoreceptor progenitors. Required for centrosome migration to the apical cell surface during early ciliogenesis. Facilitates the relaxation of mechanical stress imposed by compressive actin fibers at the rupture site through its nteraction with SYN2.
Subunit / interactions. Core component of LINC complexes which are composed of inner nuclear membrane SUN domain-containing proteins coupled to outer nuclear membrane KASH domain-containing nesprins. SUN and KASH domain-containing proteins seem to bind each other promiscuously; however, some LINC complex constituents are tissue- or cell type-specific. At least SUN1/2-containing core LINC complexes are proposed to be hexameric composed of three protomers of each KASH and SUN domain-containing protein. The SUN2:SYNE2/KASH2 complex is a heterohexamer; the homotrimeric cloverleave-like conformation of the SUN domain is a prerequisite for LINC complex formation in which three separate SYNE2/KASH2 peptides bind at the interface of adjacent SUN domains. Interacts with EMD, LMNA, MKS3 and F-actin via its N-terminal domain. Interacts with DCTN1 and DYNC1I1/2; suggesting the association with the dynein-dynactin motor complex. Associates with kinesin motor complexes. Interacts with TMEM67. Interacts (via KASH domain) with TMEM258. Interacts with BROX; this interaction promotes SYN2 ubiquitination and facilitates the relaxation of mechanical stress imposed by compressive actin fibers at the rupture site.
Subcellular location. Nucleus outer membrane. Sarcoplasmic reticulum membrane. Cell membrane. Cytoplasm. Cytoskeleton. Mitochondrion. Nucleus. Nucleoplasm. Myofibril. Sarcomere. Z line Cell junction. Focal adhesion.
Tissue specificity. Widely expressed, with higher level in kidney, adult and fetal liver, stomach and placenta. Weakly expressed in skeletal muscle and brain. Isoform 5 is highly expressed in pancreas, skeletal muscle and heart.
Post-translational modifications. The disulfid bond with SUN2 is required for stability of the SUN2:SYNE2/KASH2 LINC complex under tensile forces though not required for the interaction. Ubiquitinated, targeting it for degradation.
Disease relevance. Emery-Dreifuss muscular dystrophy 5, autosomal dominant (EDMD5) [MIM:612999] A form of Emery-Dreifuss muscular dystrophy, a degenerative myopathy characterized by weakness and atrophy of muscle without involvement of the nervous system, early contractures of the elbows, Achilles tendons and spine, and cardiomyopathy associated with cardiac conduction defects. The disease is caused by variants affecting the gene represented in this entry.
Domain organisation. The KASH domain mediates the nuclear envelope targeting.
Miscellaneous. Produced by exon skipping that results in a frameshift. Lacks the spectrin repeats and KASH domain. Detected only in ovary and early embryonic cells.
Similarity. Belongs to the nesprin family.
Isoforms (13)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q8WXH0-1 | 1, Nesprin-2 Giant, NUANCE | yes |
| Q8WXH0-2 | 2 | |
| Q8WXH0-3 | 3, epsilon2, JAM19 | |
| Q8WXH0-4 | 4, beta1 | |
| Q8WXH0-5 | 5, alpha1 | |
| Q8WXH0-6 | 6, alpha2 | |
| Q8WXH0-7 | 7, Gamma | |
| Q8WXH0-8 | 8, p32CH | |
| Q8WXH0-9 | 9, NUANCE-N-33 | |
| Q8WXH0-10 | 10, beta2 | |
| Q8WXH0-11 | 11, FLJ56122 | |
| Q8WXH0-12 | 12, FLJ55476 | |
| Q8WXH0-13 | 13, epsilon1, JAM28 |
RefSeq proteins (4): NP_055995, NP_878914, NP_878917, NP_878918* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001589 | Actinin_actin-bd_CS | Conserved_site |
| IPR001715 | CH_dom | Domain |
| IPR002017 | Spectrin_repeat | Repeat |
| IPR012315 | KASH | Domain |
| IPR018159 | Spectrin/alpha-actinin | Repeat |
| IPR036872 | CH_dom_sf | Homologous_superfamily |
| IPR056887 | SYNE1/2_dom | Domain |
| IPR057057 | Spectrin_SYNE1 | Domain |
Pfam: PF00307, PF00435, PF10541, PF25034, PF25035
UniProt features (184 total): repeat 56, sequence variant 35, splice variant 18, sequence conflict 17, compositionally biased region 14, modified residue 12, region of interest 10, helix 7, mutagenesis site 3, domain 3, topological domain 2, strand 2, chain 1, disulfide bond 1, turn 1, transmembrane region 1, coiled-coil region 1
Structure
Experimental structures (PDB)
3 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 4DXS | X-RAY DIFFRACTION | 2.71 |
| 6XF1 | X-RAY DIFFRACTION | 2.8 |
| 4FI9 | X-RAY DIFFRACTION | 3.05 |
Predicted structure (AlphaFold)
No AlphaFold model available for Q8WXH0 — AlphaFold DB does not currently provide models for proteins above ~3000 aa.
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Post-translational modifications (12): 841, 955, 2781, 4108, 5785, 6361, 6384, 6411, 6428, 6429, 6430, 6459
Disulfide bonds (1): 6862
Mutagenesis-validated functional residues (3):
| Position | Phenotype |
|---|---|
| 6876 | disrupts interaction with sun2. |
| 6878 | disrupts interaction with sun2. |
| 6883 | disrupts interaction with sun2. |
Function
Pathways and Gene Ontology
Reactome pathways
4 pathways
| ID | Pathway |
|---|---|
| R-HSA-1221632 | Meiotic synapsis |
| R-HSA-1474165 | Reproduction |
| R-HSA-1500620 | Meiosis |
| R-HSA-1640170 | Cell Cycle |
MSigDB gene sets: 0 (showing top):
GO Biological Process (6): nuclear migration (GO:0007097), nucleokinesis involved in cell motility in cerebral cortex radial glia guided migration (GO:0021817), positive regulation of cell migration (GO:0030335), nuclear migration along microfilament (GO:0031022), centrosome localization (GO:0051642), regulation of cilium assembly (GO:1902017)
GO Molecular Function (3): actin binding (GO:0003779), cytoskeleton-nuclear membrane anchor activity (GO:0140444), protein binding (GO:0005515)
GO Cellular Component (26): fibrillar center (GO:0001650), nucleus (GO:0005634), nuclear envelope (GO:0005635), nuclear outer membrane (GO:0005640), nucleoplasm (GO:0005654), cytoplasm (GO:0005737), mitochondrion (GO:0005739), focal adhesion (GO:0005925), cilium (GO:0005929), sarcoplasmic reticulum (GO:0016529), Z disc (GO:0030018), lamellipodium membrane (GO:0031258), filopodium membrane (GO:0031527), nuclear membrane (GO:0031965), nuclear lumen (GO:0031981), sarcoplasmic reticulum membrane (GO:0033017), meiotic nuclear membrane microtubule tethering complex (GO:0034993), intermediate filament cytoskeleton (GO:0045111), extracellular exosome (GO:0070062), nucleolus (GO:0005730), cytoskeleton (GO:0005856), plasma membrane (GO:0005886), endomembrane system (GO:0012505), membrane (GO:0016020), myofibril (GO:0030016), anchoring junction (GO:0070161)
Reactome top-level categories
Rollup of top-3 pathways:
| Category | Pathways |
|---|---|
| Meiosis | 1 |
| Reproduction | 1 |
| Cell Cycle | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 4 |
| nucleus | 3 |
| intracellular membrane-bounded organelle | 2 |
| nuclear lumen | 2 |
| cell projection membrane | 2 |
| intracellular transport | 1 |
| nucleus localization | 1 |
| establishment of organelle localization | 1 |
| modulation of microtubule cytoskeleton involved in cerebral cortex radial glia guided migration | 1 |
| nuclear migration along microtubule | 1 |
| cell migration | 1 |
| regulation of cell migration | 1 |
| positive regulation of cell motility | 1 |
| nuclear migration | 1 |
| actin filament-based movement | 1 |
| actin filament-based transport | 1 |
| microtubule organizing center localization | 1 |
| cilium assembly | 1 |
| regulation of plasma membrane bounded cell projection assembly | 1 |
| regulation of organelle assembly | 1 |
| cytoskeletal protein binding | 1 |
| protein-membrane adaptor activity | 1 |
| binding | 1 |
| nucleolus | 1 |
| endomembrane system | 1 |
| organelle envelope | 1 |
| nuclear membrane | 1 |
| organelle outer membrane | 1 |
| nuclear outer membrane-endoplasmic reticulum membrane network | 1 |
| intracellular anatomical structure | 1 |
| cytoplasm | 1 |
| cell-substrate junction | 1 |
| intraciliary transport particle | 1 |
| membrane-bounded organelle | 1 |
| plasma membrane bounded cell projection | 1 |
| endoplasmic reticulum | 1 |
| sarcoplasm | 1 |
| I band | 1 |
| lamellipodium | 1 |
| leading edge membrane | 1 |
Protein interactions and networks
STRING
1912 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| SYNE2 | SUN1 | O94901 | 999 |
| SYNE2 | SUN2 | Q9UH99 | 999 |
| SYNE2 | EMD | P50402 | 994 |
| SYNE2 | LMNA | P02545 | 966 |
| SYNE2 | FHOD1 | Q9Y613 | 928 |
| SYNE2 | TMEM67 | Q5HYA8 | 910 |
| SYNE2 | LMNB1 | P20700 | 816 |
| SYNE2 | FSCN1 | Q16658 | 704 |
| SYNE2 | SYNE4 | Q8N205 | 668 |
| SYNE2 | PLEC | Q15149 | 660 |
| SYNE2 | SYNE1 | Q8NF91 | 655 |
| SYNE2 | KASH5 | Q8N6L0 | 647 |
| SYNE2 | SUN3 | Q8TAQ9 | 638 |
| SYNE2 | LEMD3 | Q9Y2U8 | 605 |
| SYNE2 | TMEM43 | Q9BTV4 | 591 |
IntAct
107 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| SYNE2 | SUN2 | psi-mi:“MI:0403”(colocalization) | 0.890 |
| SUN2 | SYNE2 | psi-mi:“MI:0407”(direct interaction) | 0.890 |
| SYNE2 | SUN2 | psi-mi:“MI:0407”(direct interaction) | 0.890 |
| SYNE2 | SUN2 | psi-mi:“MI:0915”(physical association) | 0.890 |
| SUN2 | SYNE1 | psi-mi:“MI:0915”(physical association) | 0.810 |
| VAPB | FAM83G | psi-mi:“MI:0914”(association) | 0.730 |
| CFTR | ESYT2 | psi-mi:“MI:2364”(proximity) | 0.710 |
| YWHAG | BLTP3B | psi-mi:“MI:2364”(proximity) | 0.640 |
| VAPA | FAM83G | psi-mi:“MI:0914”(association) | 0.640 |
| VAPA | PITPNM1 | psi-mi:“MI:0914”(association) | 0.640 |
| EFTUD2 | SART1 | psi-mi:“MI:0914”(association) | 0.610 |
| FHOD1 | SYNE2 | psi-mi:“MI:0915”(physical association) | 0.580 |
| STAT3 | BANF1 | psi-mi:“MI:0914”(association) | 0.530 |
| CAPN6 | UBA6 | psi-mi:“MI:0914”(association) | 0.530 |
| FBXO2 | TMEM131L | psi-mi:“MI:0914”(association) | 0.530 |
| NUP62 | RGPD8 | psi-mi:“MI:0914”(association) | 0.530 |
| EFTUD2 | AQR | psi-mi:“MI:0914”(association) | 0.530 |
| NRM | ZMPSTE24 | psi-mi:“MI:0914”(association) | 0.530 |
| ANKRD22 | ESYT2 | psi-mi:“MI:0914”(association) | 0.530 |
| SLC30A4 | OPA1 | psi-mi:“MI:0914”(association) | 0.530 |
| SUN2 | PIP | psi-mi:“MI:0914”(association) | 0.530 |
BioGRID (257): SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Co-fractionation), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS), SYNE2 (Affinity Capture-MS)
ESM2 similar proteins: A0A8M2BID5, A0A8M9PQ61, A1Z7A6, D3ZHV2, E9Q557, F1LMV6, F1M0Z1, G3V7L1, O43150, O60229, O60437, O75962, O97592, O97902, P0CE94, P0CE95, P10911, P11530, P11531, P11532, P11533, P15924, P30427, P33175, P46939, Q03001, Q0KL02, Q15149, Q1AAU6, Q1LUA6, Q5GN48, Q6ZWR6, Q7SIG6, Q8CIS0, Q8NF91, Q8WXH0, Q91ZU6, Q92817, Q95RG8, Q9BXL7
Diamond homologs: A5D7D1, D3ZEN0, D3ZHA0, D3ZHV2, D3ZQL6, E1BBG2, F1MF74, F1RA39, F6QZ15, G3MWR8, G3V7L1, L7UZ85, M9MRD1, O13728, O15020, O43707, O75369, O76329, O88990, O94851, O97592, P05094, P05095, P07751, P11277, P11530, P11531, P11532, P11533, P12814, P13395, P13466, P15508, P16086, P16546, P18091, P20111, P21333, P30427, P35609
SIGNOR signaling
1 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| SYNE2 | “form complex” | “LINC complex” | binding |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 122 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
Reactome pathways:
| Pathway | Partners | Fold | FDR |
|---|---|---|---|
| Translocation of SLC2A4 (GLUT4) to the plasma membrane | 7 | 12.3× | 6e-04 |
| Programmed Cell Death | 7 | 11.7× | 6e-04 |
| Apoptosis | 6 | 11.4× | 3e-03 |
| Cell Cycle | 11 | 4.5× | 4e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
4830 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 2 |
| Likely pathogenic | 9 |
| Uncertain significance | 2661 |
| Likely benign | 1237 |
| Benign | 416 |
Top pathogenic / likely-pathogenic (11)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1027485 | NM_182914.3(SYNE2):c.2970C>A (p.Tyr990Ter) | Pathogenic |
| 1172818 | NM_182914.3(SYNE2):c.16153C>T (p.Gln5385Ter) | Pathogenic |
| 1710188 | NM_182914.3(SYNE2):c.14503dup (p.Ser4835fs) | Likely pathogenic |
| 191047 | NM_182914.3(SYNE2):c.4462C>T (p.Gln1488Ter) | Likely pathogenic |
| 2506503 | NM_182914.3(SYNE2):c.990_990+4del | Likely pathogenic |
| 3027440 | NM_182914.3(SYNE2):c.15533_15537del (p.Lys5178fs) | Likely pathogenic |
| 425043 | NM_182914.3(SYNE2):c.4397G>A (p.Arg1466Gln) | Likely pathogenic |
| 4279615 | NM_182914.3(SYNE2):c.6790dup (p.Thr2264fs) | Likely pathogenic |
| 4687900 | NM_182914.3(SYNE2):c.9285del (p.Lys3095fs) | Likely pathogenic |
| 4687961 | NM_182914.3(SYNE2):c.4085dup (p.Asn1362fs) | Likely pathogenic |
| 4820165 | NM_182914.3(SYNE2):c.19900_19906dup (p.Val6636fs) | Likely pathogenic |
SpliceAI
17812 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 14:63909090:A:AG | acceptor_gain | 1.0000 |
| 14:63909091:C:G | acceptor_gain | 1.0000 |
| 14:63909093:TTCA:T | acceptor_loss | 1.0000 |
| 14:63909095:CAGTT:C | acceptor_loss | 1.0000 |
| 14:63909096:A:AG | acceptor_gain | 1.0000 |
| 14:63909097:G:GG | acceptor_gain | 1.0000 |
| 14:63909097:GT:G | acceptor_gain | 1.0000 |
| 14:63909097:GTT:G | acceptor_gain | 1.0000 |
| 14:63909097:GTTC:G | acceptor_gain | 1.0000 |
| 14:63909097:GTTCA:G | acceptor_gain | 1.0000 |
| 14:63909224:CAAGG:C | donor_loss | 1.0000 |
| 14:63909225:AAGG:A | donor_loss | 1.0000 |
| 14:63909227:GGT:G | donor_loss | 1.0000 |
| 14:63909228:G:A | donor_loss | 1.0000 |
| 14:63909229:T:A | donor_loss | 1.0000 |
| 14:63940608:T:A | acceptor_gain | 1.0000 |
| 14:63940612:A:AG | acceptor_gain | 1.0000 |
| 14:63940612:AGCT:A | acceptor_gain | 1.0000 |
| 14:63940613:G:GC | acceptor_gain | 1.0000 |
| 14:63940613:GC:G | acceptor_gain | 1.0000 |
| 14:63940613:GCT:G | acceptor_gain | 1.0000 |
| 14:63940613:GCTG:G | acceptor_gain | 1.0000 |
| 14:63940672:CAGGG:C | donor_loss | 1.0000 |
| 14:63940673:AGGGT:A | donor_loss | 1.0000 |
| 14:63940674:GG:G | donor_gain | 1.0000 |
| 14:63940674:GGGTA:G | donor_loss | 1.0000 |
| 14:63940675:GG:G | donor_gain | 1.0000 |
| 14:63940676:G:GG | donor_gain | 1.0000 |
| 14:63940676:GT:G | donor_loss | 1.0000 |
| 14:63940677:TAAG:T | donor_loss | 1.0000 |
AlphaMissense
46084 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 14:64208905:T:A | W6117R | 1.000 |
| 14:64208905:T:C | W6117R | 1.000 |
| 14:64208907:G:C | W6117C | 1.000 |
| 14:64208907:G:T | W6117C | 1.000 |
| 14:64212019:T:C | L6261P | 1.000 |
| 14:64212034:T:C | L6266P | 1.000 |
| 14:64212040:T:C | L6268P | 1.000 |
| 14:64214392:T:A | W6419R | 1.000 |
| 14:64214392:T:C | W6419R | 1.000 |
| 14:64214394:G:C | W6419C | 1.000 |
| 14:64214394:G:T | W6419C | 1.000 |
| 14:64202812:T:C | L6017P | 0.999 |
| 14:64202896:T:C | L6045P | 0.999 |
| 14:64208825:T:C | L6090P | 0.999 |
| 14:64208903:G:C | R6116P | 0.999 |
| 14:64208906:G:C | W6117S | 0.999 |
| 14:64208936:G:C | R6127P | 0.999 |
| 14:64209450:T:A | W6138R | 0.999 |
| 14:64209450:T:C | W6138R | 0.999 |
| 14:64209493:T:C | L6152P | 0.999 |
| 14:64209979:T:C | L6193P | 0.999 |
| 14:64209999:T:G | Y6200D | 0.999 |
| 14:64210009:T:C | L6203P | 0.999 |
| 14:64210024:G:C | R6208P | 0.999 |
| 14:64210077:T:A | W6226R | 0.999 |
| 14:64210077:T:C | W6226R | 0.999 |
| 14:64210087:T:C | L6229P | 0.999 |
| 14:64212094:T:C | L6286P | 0.999 |
| 14:64212857:T:C | L6303P | 0.999 |
| 14:64212878:T:C | L6310P | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000000251 (14:64080399 T>C), RS1000005567 (14:64080671 T>G), RS1000012927 (14:64149301 A>C), RS1000015627 (14:64204072 G>A), RS1000018107 (14:63866006 C>G,T), RS1000025873 (14:63881620 A>G), RS1000026702 (14:63822792 G>A), RS1000034207 (14:64026686 C>T), RS1000038374 (14:63822434 G>A,T), RS1000040756 (14:64071627 T>C), RS1000056679 (14:64094759 G>A), RS1000061105 (14:64038807 C>T), RS1000064774 (14:63907600 G>A), RS1000067294 (14:63780482 C>T), RS1000081232 (14:63995794 G>C)
Disease associations
OMIM: gene MIM:608442 | disease phenotypes: MIM:612999, MIM:108600, MIM:159001, MIM:181350
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| autosomal dominant Emery-Dreifuss muscular dystrophy | Supportive | Autosomal dominant |
| Emery-Dreifuss muscular dystrophy 5, autosomal dominant | Limited | Autosomal dominant |
| left ventricular noncompaction | Limited | Autosomal dominant |
Mondo (9): Emery-Dreifuss muscular dystrophy 5, autosomal dominant (MONDO:0013072), spastic ataxia (MONDO:0017845), cerebral palsy (MONDO:0006497), dilated cardiomyopathy (MONDO:0005021), long QT syndrome (MONDO:0002442), restrictive cardiomyopathy (MONDO:0005201), Emery-Dreifuss muscular dystrophy 2, autosomal dominant (MONDO:0021569), left ventricular noncompaction (MONDO:0018901), autosomal dominant Emery-Dreifuss muscular dystrophy (MONDO:0020336)
Orphanet (5): Emery-Dreifuss muscular dystrophy (Orphanet:261), Spastic ataxia (Orphanet:316226), Dilated cardiomyopathy (Orphanet:217604), Restrictive cardiomyopathy (Orphanet:217632), Autosomal dominant limb-girdle muscular dystrophy type 1B (Orphanet:264)
HPO phenotypes
55 total (30 of 55 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0000508 | Ptosis |
| HP:0000767 | Pectus excavatum |
| HP:0000912 | Sprengel anomaly |
| HP:0001249 | Intellectual disability |
| HP:0001252 | Hypotonia |
| HP:0001288 | Gait disturbance |
| HP:0001315 | Reduced tendon reflexes |
| HP:0001387 | Joint stiffness |
| HP:0001513 | Obesity |
| HP:0001605 | Vocal cord paralysis |
| HP:0001638 | Cardiomyopathy |
| HP:0001639 | Hypertrophic cardiomyopathy |
| HP:0001644 | Dilated cardiomyopathy |
| HP:0001645 | Sudden cardiac death |
| HP:0001678 | Atrioventricular block |
| HP:0001771 | Achilles tendon contracture |
| HP:0002093 | Respiratory insufficiency |
| HP:0002155 | Hypertriglyceridemia |
| HP:0002486 | Myotonia |
| HP:0002515 | Waddling gait |
| HP:0002650 | Scoliosis |
| HP:0002747 | Respiratory insufficiency due to muscle weakness |
| HP:0002808 | Kyphosis |
| HP:0002987 | Elbow flexion contracture |
| HP:0003141 | Increased LDL cholesterol concentration |
| HP:0003198 | Myopathy |
| HP:0003236 | Elevated circulating creatine kinase concentration |
| HP:0003306 | Spinal rigidity |
| HP:0003307 | Hyperlordosis |
GWAS associations
40 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001444_32 | Pulmonary function decline | 6.000000e-07 |
| GCST001499_9 | Atrial fibrillation | 6.000000e-13 |
| GCST004295_9 | Atrial fibrillation | 1.000000e-10 |
| GCST005648_25 | Serum metabolite concentrations in chronic kidney disease | 7.000000e-15 |
| GCST005648_26 | Serum metabolite concentrations in chronic kidney disease | 5.000000e-12 |
| GCST005650_209 | Serum metabolite ratios in chronic kidney disease | 5.000000e-22 |
| GCST005839_35 | Depression | 8.000000e-10 |
| GCST006061_169 | Atrial fibrillation | 2.000000e-29 |
| GCST006061_170 | Atrial fibrillation | 1.000000e-24 |
| GCST006414_22 | Atrial fibrillation | 3.000000e-31 |
| GCST006988_89 | Blond vs. brown/black hair color | 6.000000e-15 |
| GCST007505_14 | Nevus count or cutaneous melanoma | 4.000000e-08 |
| GCST008479_12 | Psoriasis | 4.000000e-11 |
| GCST008933_1 | Sphingomyelin levels | 3.000000e-26 |
| GCST008933_11 | Sphingomyelin levels | 1.000000e-09 |
| GCST008933_2 | Sphingomyelin levels | 1.000000e-19 |
| GCST008933_3 | Sphingomyelin levels | 4.000000e-12 |
| GCST008933_4 | Sphingomyelin levels | 4.000000e-11 |
| GCST008933_5 | Sphingomyelin levels | 7.000000e-09 |
| GCST009391_744 | Metabolite levels | 8.000000e-12 |
| GCST009600_15 | Anorexia nervosa, attention-deficit/hyperactivity disorder, autism spectrum disorder, bipolar disorder, major depression, obsessive-compulsive disorder, schizophrenia, or Tourette syndrome (pleiotropy) | 3.000000e-09 |
| GCST009996_6 | HDL cholesterol levels | 2.000000e-07 |
| GCST010302_40 | Cutaneous melanoma or hair colour | 6.000000e-27 |
| GCST010303_31 | Nevus count or cutaneous melanoma | 6.000000e-13 |
| GCST010304_2 | Cutaneous malignant melanoma | 6.000000e-08 |
| GCST010320_122 | PR interval | 8.000000e-14 |
| GCST010321_86 | PR interval | 6.000000e-14 |
| GCST011011_23 | Youthful appearance (self-reported) | 3.000000e-14 |
| GCST012020_173 | Serum metabolite levels | 5.000000e-18 |
| GCST012020_336 | Serum metabolite levels | 2.000000e-16 |
EFO canonical traits (7, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004713 | FEV/FVC ratio |
| EFO:0003924 | hair color |
| EFO:0004632 | nevus count |
| EFO:0010118 | sphingomyelin measurement |
| EFO:0010390 | sphingomyelin 14:0 measurement |
| EFO:0007805 | HDL cholesterol change measurement |
| EFO:0004462 | PR interval |
MeSH disease descriptors (6)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D002311 | Cardiomyopathy, Dilated | C14.280.195.160; C14.280.238.070; C16.320.488.750 |
| D002313 | Cardiomyopathy, Restrictive | C14.280.238.160 |
| D002547 | Cerebral Palsy | C10.228.140.140.254 |
| D008133 | Long QT Syndrome | C14.280.067.565; C14.280.123.625; C16.131.240.400.715; C23.550.073.547 |
| C535898 | Limb-girdle muscular dystrophy, type 1B (supp.) | |
| C564815 | Spastic Ataxia (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
PharmGKB variants
1 variants.
| Variant | Genes | Level | Score | #Clin annots | Drugs |
|---|---|---|---|---|---|
| rs2781377 | SYNE2 | 0.00 | 0 |
CTD chemical–gene interactions
84 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Air Pollutants | decreases expression, affects cotreatment, increases abundance, increases expression | 4 |
| Benzo(a)pyrene | increases methylation, affects methylation, decreases expression, decreases methylation | 4 |
| bisphenol A | affects cotreatment, affects methylation, decreases expression, increases methylation | 3 |
| sodium arsenite | decreases expression, affects cotreatment, increases abundance | 3 |
| Acrolein | affects cotreatment, decreases expression, increases oxidation, increases abundance | 3 |
| trichostatin A | affects cotreatment, decreases expression | 2 |
| methacrylaldehyde | affects cotreatment, decreases expression, increases oxidation, increases abundance | 2 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | affects cotreatment, increases expression, decreases expression | 2 |
| Arsenic | affects cotreatment, decreases expression, increases abundance | 2 |
| Ozone | affects cotreatment, decreases expression, increases oxidation, increases abundance | 2 |
| Rotenone | decreases expression | 2 |
| Smoke | decreases expression, increases abundance, increases expression | 2 |
| Valproic Acid | decreases expression | 2 |
| 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide | decreases expression | 2 |
| Particulate Matter | increases abundance, increases expression | 2 |
| aristolochic acid I | decreases expression | 1 |
| GSK-J4 | increases expression | 1 |
| FR900359 | increases phosphorylation | 1 |
| methylmercuric chloride | decreases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| alpha-pinene | increases abundance, affects cotreatment, decreases expression | 1 |
| captax | decreases expression | 1 |
| propylparaben | decreases expression | 1 |
| decabromobiphenyl ether | decreases expression | 1 |
| cinnamaldehyde | decreases expression | 1 |
| beta-lapachone | decreases expression | 1 |
| 1,6-hexamethylene diisocyanate | decreases expression | 1 |
| mono-(2-ethylhexyl)phthalate | increases abundance, increases methylation | 1 |
| ammonium hexachloroplatinate | decreases expression | 1 |
| butyraldehyde | decreases expression | 1 |
Clinical trials (associated diseases)
307 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00154830 | PHASE4 | COMPLETED | Alterations of Functional Activities and Leg Stiffness After Hamstring Lengthening in Cerebral Palsy Children |
| NCT00432055 | PHASE4 | COMPLETED | Effects of Botulinum Toxin Type A in Adults With Cerebral Palsy |
| NCT00549471 | PHASE4 | TERMINATED | Improvement After Botulinum Toxin Injections to the Arms in Children With Cerebral Palsy |
| NCT00752934 | PHASE4 | TERMINATED | Does Oral Baclofen Improve Care and Comfort in Spastic Children in Nursing Homes? |
| NCT00964639 | PHASE4 | COMPLETED | Postoperative Pain in Children With Cerebral Palsy After Pelvic and Femoral Osteotomies |
| NCT01386255 | PHASE4 | WITHDRAWN | Placebo Controlled Study of Baclofen for GERD in Children With Cerebral Palsy |
| NCT02546999 | PHASE4 | COMPLETED | Does Botulinum Toxin A Make Walking Easier in Children With Cerebral Palsy? |
| NCT02633241 | PHASE4 | COMPLETED | A Pilot Study of Dexmedetomidine-Propofol in Children Undergoing Magnetic Resonance Imaging |
| NCT03117322 | PHASE4 | COMPLETED | Synbiotic, Prebiotics and Probiotics in Children With Cerebral Palsy and Constipation |
| NCT03648658 | PHASE4 | UNKNOWN | Paracetamol Study in Patients With Low Muscle Mass |
| NCT04074265 | PHASE4 | COMPLETED | Peri-operative Use of a Pain Injection in Pediatric Patients With Cerebral Palsy |
| NCT04273737 | PHASE4 | TERMINATED | Amantadine in Treating Cognitive & Motor Impairments in Adolescents and Adults With Cerebral Palsy |
| NCT04523935 | PHASE4 | COMPLETED | Excessive Crying in Children With Cerebral Palsy and Communication Deficits |
| NCT05887765 | PHASE4 | COMPLETED | Effect of Systematic Dexamethasone on the Duration of Popliteal Nerve Block for Anesthesia After Pediatric Ankle Surgery |
| NCT06176430 | PHASE4 | UNKNOWN | Comparison of Twice Weekly Versus Daily Iron Therapy in Treating Anemia in Children With Cerebral Palsy |
| NCT06189781 | PHASE4 | RECRUITING | Pain Injection Versus Epidural Anesthesia for Hip Surgery in Pediatric Patients With Cerebral Palsy |
| NCT00014989 | PHASE3 | COMPLETED | Beneficial Effects of Antenatal Magnesium Sulfate (BEAM Trial) |
| NCT00065949 | PHASE3 | UNKNOWN | Magnesium Sulfate to Prevent Brain Injury in Premature Infants |
| NCT00367068 | PHASE3 | COMPLETED | Dutch National ITB Study in Children With Cerebral Palsy |
| NCT00491894 | PHASE3 | COMPLETED | Safety and Efficacy Study of Oral Glycopyrrolate Liquid for the Treatment of Pathologic (Chronic Moderate to Severe) Drooling in Pediatric Patients 3 to 18 Years of Age With Cerebral Palsy or Other Neurologic Conditions |
| NCT00632528 | PHASE3 | COMPLETED | MEOPA to Improve Physical Therapy Results After Multilevel Surgery |
| NCT00822029 | PHASE3 | TERMINATED | Use of Oral Bisphosphonates in the Treatment of Osteoporosis of Non-walking Children With Cerebral Palsy |
| NCT00922077 | PHASE3 | COMPLETED | Individualized Neurodevelopmental Treatment |
| NCT01249417 | PHASE3 | COMPLETED | Dysport® Pediatric Lower Limb Spasticity Study |
| NCT01251380 | PHASE3 | COMPLETED | Dysport® Pediatric Lower Limb Spasticity Follow-on Study |
| NCT01437644 | PHASE3 | COMPLETED | The Post-Operative Pain in Cerebral Palsy (POPPIES) Trial |
| NCT01492608 | PHASE3 | COMPLETED | Magnesium Sulphate for Preterm Birth (MASP Study) |
| NCT01603602 | PHASE3 | COMPLETED | BOTOX® Treatment in Pediatric Upper Limb Spasticity |
| NCT01603615 | PHASE3 | COMPLETED | BOTOX® Open-Label Treatment in Pediatric Upper Limb Spasticity |
| NCT01603628 | PHASE3 | COMPLETED | BOTOX® Treatment in Pediatric Lower Limb Spasticity |
| NCT01603641 | PHASE3 | COMPLETED | BOTOX® Open-Label Treatment in Pediatric Lower Limb Spasticity |
| NCT01633736 | PHASE3 | UNKNOWN | Targeted Hip Strength Training in Children With Cerebral Palsy (CP) |
| NCT01898520 | PHASE3 | COMPLETED | A Safety, Efficacy and Tolerability Study of Sativex for the Treatment of Spasticity in Children Aged 8 to 18 Years |
| NCT01929434 | PHASE3 | COMPLETED | Efficacy of Stem Cell Transplantation Compared to Rehabilitation Treatment of Patients With Cerebral Paralysis |
| NCT02002884 | PHASE3 | COMPLETED | Dose-response Study of Efficacy and Safety of Botulinum Toxin Type A to Treat Spasticity of the Arm(s) or of Arm(s) and Leg(s) in Cerebral Palsy |
| NCT02270736 | PHASE3 | COMPLETED | Clinical Study to Investigate the Efficacy and Safety of NT 201 Compared to Placebo in the Treatment of Chronic Troublesome Drooling Associated With Neurological Disorders and/or Intellectual Disability |
| NCT02839785 | PHASE3 | TERMINATED | Analgesia and Physiotherapy in Children With Cerebral Palsy (ANTALKINECP) |
| NCT03110341 | PHASE3 | UNKNOWN | Effect of Erythropoietin in Premature Infants on White Matter Lesions and Neurodevelopmental Outcome |
| NCT03302871 | PHASE3 | COMPLETED | Integrated Management Enhances Functional Gains in Children With Cerebral Palsy Treated by BoNT-A |
| NCT03306212 | PHASE3 | COMPLETED | Efficacy of Intermittent Serial Casting on Spastic Wrist Flexion Deformity |
Related Atlas pages
- Associated diseases: Emery-Dreifuss muscular dystrophy 5, autosomal dominant, left ventricular noncompaction, autosomal dominant Emery-Dreifuss muscular dystrophy
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): anorexia nervosa, atrial fibrillation, autosomal dominant Emery-Dreifuss muscular dystrophy, cerebral palsy, cutaneous melanoma, dilated cardiomyopathy, Emery-Dreifuss muscular dystrophy 2, autosomal dominant, Emery-Dreifuss muscular dystrophy 5, autosomal dominant, left ventricular noncompaction, long QT syndrome, obsessive-compulsive disorder, restrictive cardiomyopathy, spastic ataxia