SESTD1

gene
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Also known as DKFZp434O0515Solo

Summary

SESTD1 (SEC14 and spectrin domain containing 1, HGNC:18379) is a protein-coding gene on chromosome 2q31.2, encoding SEC14 domain and spectrin repeat-containing protein 1 (Q86VW0). May act as the primary docking protein directing membrane turnover and assembly of the transient receptor potential channels TRPC4 and TRPC5.

Enables phosphatidylinositol-3,4-bisphosphate binding activity and phospholipid binding activity. Involved in negative regulation of calcium ion transmembrane transport via high voltage-gated calcium channel. Located in calcium channel complex and intermediate filament cytoskeleton.

Source: NCBI Gene 91404 — RefSeq curated summary.

At a glance

  • GWAS associations: 6
  • Clinical variants (ClinVar): 83 total
  • MANE Select transcript: NM_178123

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:18379
Approved symbolSESTD1
NameSEC14 and spectrin domain containing 1
Location2q31.2
Locus typegene with protein product
StatusApproved
AliasesDKFZp434O0515, Solo
Ensembl geneENSG00000187231
Ensembl biotypeprotein_coding
OMIM621011
Entrez91404

Gene structure

Transcript identifiers

Ensembl transcripts: 23 — 17 protein_coding, 3 protein_coding_CDS_not_defined, 2 nonsense_mediated_decay, 1 retained_intron

ENST00000335289, ENST00000426988, ENST00000428443, ENST00000435047, ENST00000440010, ENST00000446758, ENST00000452991, ENST00000486468, ENST00000489901, ENST00000854635, ENST00000854636, ENST00000854637, ENST00000854638, ENST00000854639, ENST00000854640, ENST00000932265, ENST00000949561, ENST00000949562, ENST00000949563, ENST00000949564, ENST00000949565, ENST00000949566, ENST00000949567

RefSeq mRNA: 1 — MANE Select: NM_178123 NM_178123

CCDS: CCDS33338

Canonical transcript exons

ENST00000428443 — 18 exons

ExonStartEnd
ENSE00001340622179123715179123829
ENSE00001340625179124364179124558
ENSE00001340627179132304179132426
ENSE00001340630179146402179146457
ENSE00001340631179149297179149394
ENSE00001340633179151278179151391
ENSE00001836148179101678179110028
ENSE00001892961179264499179264832
ENSE00003463616179115065179115256
ENSE00003480444179116668179116790
ENSE00003568457179117532179117613
ENSE00003598616179191787179191866
ENSE00003629122179176448179176538
ENSE00003636098179112724179112845
ENSE00003637901179143592179143803
ENSE00003640049179172120179172233
ENSE00003661111179183080179183188
ENSE00003661247179121770179121929

Expression profiles

Bgee: expression breadth ubiquitous, 255 present calls, max score 97.91.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 21.8033 / max 461.1191, expressed in 1757 samples.

FANTOM5 promoters (7 alternative TSS)

Promoter IDTPM avgSamples expressed
3267312.22211715
326697.41171638
326751.2693139
326720.3607157
326700.3576148
326740.109540
326710.072511

Top tissues by expression

256 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
calcaneal tendonUBERON:000370197.91gold quality
corpus callosumUBERON:000233697.32gold quality
lateral nuclear group of thalamusUBERON:000273697.14gold quality
mucosa of stomachUBERON:000119996.74gold quality
inferior vagus X ganglionUBERON:000536396.50gold quality
subthalamic nucleusUBERON:000190696.42gold quality
cartilage tissueUBERON:000241896.23gold quality
kidney epitheliumUBERON:000481995.95gold quality
dorsal plus ventral thalamusUBERON:000189795.92gold quality
secondary oocyteCL:000065595.80gold quality
nasal cavity epitheliumUBERON:000538495.76gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099195.32gold quality
tendonUBERON:000004395.18gold quality
pancreatic ductal cellCL:000207995.11gold quality
descending thoracic aortaUBERON:000234595.02gold quality
substantia nigra pars reticulataUBERON:000196694.99gold quality
subcutaneous adipose tissueUBERON:000219094.94gold quality
C1 segment of cervical spinal cordUBERON:000646994.94gold quality
popliteal arteryUBERON:000225094.85gold quality
spinal cordUBERON:000224094.84gold quality
tibial arteryUBERON:000761094.83gold quality
globus pallidusUBERON:000187594.80gold quality
sural nerveUBERON:001548894.75gold quality
medial globus pallidusUBERON:000247794.74gold quality
islet of LangerhansUBERON:000000694.71gold quality
aortaUBERON:000094794.65gold quality
lateral globus pallidusUBERON:000247694.57gold quality
saphenous veinUBERON:000731894.49gold quality
adipose tissueUBERON:000101394.45gold quality
thoracic aortaUBERON:000151594.40gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-ANND-3yes17.17
E-GEOD-137537yes5.31

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

394 targeting SESTD1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-29A-3P100.0073.111835
HSA-MIR-29B-3P100.0073.181833
HSA-MIR-29C-3P100.0073.151833
HSA-MIR-5692A100.0074.406850
HSA-MIR-3163100.0077.238605
HSA-MIR-190A-3P100.0080.355520
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-4481100.0066.421669
HSA-MIR-4668-3P100.0068.742635
HSA-MIR-428299.9975.366408
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-450099.9972.722367
HSA-MIR-318599.9968.121959
HSA-MIR-150-5P99.9966.691976
HSA-MIR-186-5P99.9970.833707
HSA-MIR-366299.9973.825684
HSA-MIR-4789-3P99.9970.752484
HSA-MIR-520D-5P99.9873.344883
HSA-MIR-524-5P99.9873.434882
HSA-MIR-433-3P99.9869.371203
HSA-LET-7A-5P99.9872.291790
HSA-LET-7B-5P99.9872.311790
HSA-LET-7C-5P99.9872.291790
HSA-LET-7E-5P99.9872.291790
HSA-LET-7F-5P99.9872.561784
HSA-LET-7G-5P99.9872.371784
HSA-LET-7I-5P99.9872.371788
HSA-MIR-98-5P99.9872.331787
HSA-MIR-56899.9869.862084
HSA-MIR-367-3P99.9874.831819

Literature-anchored findings (GeneRIF, showing 4)

  • SESTD1 was found to associate with TRPC4 and TRPC5 via the channel’s calmodulin- and inositol 1,4,5-trisphosphate receptor-binding domain. (PMID:20164195)
  • Upregulation of miR-532-5p and subsequent suppression of the SESTD1 and TAB3 genes represent an antiviral response aimed at limiting West Nile virus infection. (PMID:26676784)
  • The interplay between Solo protein and keratin 8/keratin 18 filaments plays a crucial role in tensile force-induced RhoA activation and consequent actin cytoskeletal reinforcement in endothelial cells. (PMID:26823019)
  • Solo plays a crucial role in HD formation and acinar development in epithelial cells by regulating mechanical force-induced RhoA activation and keratin filament organization. (PMID:29672603)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_reriosestd1ENSDARG00000040614
mus_musculusSestd1ENSMUSG00000042272
rattus_norvegicusSestd1ENSRNOG00000012603

Paralogs (22): TRIO (ENSG00000038382), MCF2L2 (ENSG00000053524), PLEKHG2 (ENSG00000090924), MCF2 (ENSG00000101977), ARHGEF7 (ENSG00000102606), PLEKHG1 (ENSG00000120278), MCF2L (ENSG00000126217), ARHGEF6 (ENSG00000129675), ARHGEF9 (ENSG00000131089), VAV3 (ENSG00000134215), VAV1 (ENSG00000141968), TIAM2 (ENSG00000146426), KIAA1755 (ENSG00000149633), PLEKHG4B (ENSG00000153404), TIAM1 (ENSG00000156299), KALRN (ENSG00000160145), VAV2 (ENSG00000160293), ARHGEF40 (ENSG00000165801), SPATA13 (ENSG00000182957), PLEKHN1 (ENSG00000187583), PLEKHG4 (ENSG00000196155), ARHGEF25 (ENSG00000240771)

Protein

Protein identifiers

SEC14 domain and spectrin repeat-containing protein 1Q86VW0 (reviewed: Q86VW0)

Alternative names: Huntingtin-interacting protein-like protein, Protein Solo

All UniProt accessions (5): C9J4X8, C9JHW6, Q86VW0, H0Y774, H7BXT9

UniProt curated annotations — full annotation on UniProt →

Function. May act as the primary docking protein directing membrane turnover and assembly of the transient receptor potential channels TRPC4 and TRPC5. Binds phospholipids such as phosphatidylinositol monophosphates, phosphatidylinositol diphosphates (PIP2s) and phosphatidic acid, but not less polar lipids including phosphatidylcholine, phosphatidylserine, and phosphatidylinositol. The binding to PIP2s is calcium dependent. Might be involved in the plasma membrane localization of CTNNB1.

Subunit / interactions. Interacts (via the spectrin 1 repeat) with TRPC4 and TRPC5 (via CIRB domain). Interacts with CTNNB1.

Tissue specificity. Broad expression. High expression in thalamus and brain. Significantly expressed in vasculature.

Miscellaneous. Called SOLO because the encoded protein is related to but shorter than DUO and TRIO.

Similarity. Belongs to the SOLO family.

RefSeq proteins (1): NP_835224* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001251CRAL-TRIO_domDomain
IPR056804Spectrin_SESTD1Domain

Pfam: PF13716, PF24915

UniProt features (8 total): repeat 3, sequence variant 2, chain 1, domain 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q86VW0-F186.060.58

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 285 (showing top): GSE45365_HEALTHY_VS_MCMV_INFECTION_CD8_TCELL_IFNAR_KO_UP, GSE45365_CTRL_VS_MCMV_INFECTION_NK_CELL_DN, TGGTGCT_MIR29A_MIR29B_MIR29C, GOBP_NEGATIVE_REGULATION_OF_TRANSMEMBRANE_TRANSPORT, TTTGTAG_MIR520D, GOBP_MONOATOMIC_CATION_TRANSPORT, PATIL_LIVER_CANCER, GTGCCTT_MIR506, GGGCATT_MIR365, GOBP_NEGATIVE_REGULATION_OF_TRANSPORT, CATTTCA_MIR203, FREAC3_01, GOBP_REGULATION_OF_CALCIUM_ION_TRANSMEMBRANE_TRANSPORT, LIAO_METASTASIS, GOBP_NEGATIVE_REGULATION_OF_CALCIUM_ION_TRANSPORT

GO Biological Process (1): negative regulation of calcium ion transmembrane transport via high voltage-gated calcium channel (GO:1904878)

GO Molecular Function (8): phosphatidylinositol-4,5-bisphosphate binding (GO:0005546), phosphatidylinositol-5-phosphate binding (GO:0010314), phosphatidylinositol-3-phosphate binding (GO:0032266), phosphatidylinositol-3,4-bisphosphate binding (GO:0043325), phosphatidylinositol-4-phosphate binding (GO:0070273), phosphatidic acid binding (GO:0070300), phosphatidylinositol-3,5-bisphosphate binding (GO:0080025), protein binding (GO:0005515)

GO Cellular Component (2): intermediate filament cytoskeleton (GO:0045111), calcium channel complex (GO:0034704)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
phosphatidylinositol phosphate binding5
phosphatidylinositol bisphosphate binding3
anion binding3
calcium ion transmembrane transport via high voltage-gated calcium channel1
regulation of calcium ion transmembrane transport via high voltage-gated calcium channel1
negative regulation of calcium ion transmembrane transport1
phospholipid binding1
binding1
cytoskeleton1
cation channel complex1

Protein interactions and networks

STRING

600 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
SESTD1TRPC5Q9UL62816
SESTD1TRPC4Q9UBN4805
SESTD1TAB3Q8N5C8544
SESTD1SMC3Q9UQE7507
SESTD1PLEKP08567502
SESTD1PLEK2Q9NYT0497
SESTD1BRCA1P38398479
SESTD1PARP1P09874476
SESTD1CALML6Q8TD86455
SESTD1CALML3P27482455
SESTD1CALML5Q9NZT1455
SESTD1CALML4Q96GE6455
SESTD1CALM1P02593454
SESTD1A0A2R8Y809A0A2R8Y809446
SESTD1TBCEQ15813446

IntAct

82 interactions, top by confidence:

ABTypeScore
GPS2SESTD1psi-mi:“MI:0915”(physical association)0.780
SESTD1GPS2psi-mi:“MI:0915”(physical association)0.780
SESTD1STMN2psi-mi:“MI:0915”(physical association)0.670
FAM9CNDC80psi-mi:“MI:0914”(association)0.670
P4HA3FAM171A2psi-mi:“MI:0914”(association)0.640
IRAK2SESTD1psi-mi:“MI:0914”(association)0.640
SESTD1STMN1psi-mi:“MI:0915”(physical association)0.560
STMN1SESTD1psi-mi:“MI:0915”(physical association)0.560
SESTD1RABGEF1psi-mi:“MI:0915”(physical association)0.560
IQCB1SESTD1psi-mi:“MI:0915”(physical association)0.560
DACT3SESTD1psi-mi:“MI:0915”(physical association)0.560
SESTD1ZNF830psi-mi:“MI:0915”(physical association)0.560
SESTD1HSF4psi-mi:“MI:0915”(physical association)0.560
TEAD4SESTD1psi-mi:“MI:0915”(physical association)0.560
SESTD1CBX8psi-mi:“MI:0915”(physical association)0.560
ZNF669LRP4psi-mi:“MI:0914”(association)0.530
YWHAZBLTP3Bpsi-mi:“MI:0914”(association)0.530
HSF4HSF1psi-mi:“MI:0914”(association)0.530
ARL11SESTD1psi-mi:“MI:0914”(association)0.530
STMN2MTA2psi-mi:“MI:0914”(association)0.530

BioGRID (56): SESTD1 (Two-hybrid), SESTD1 (Two-hybrid), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS), SESTD1 (Affinity Capture-MS)

ESM2 similar proteins: A2AGL3, B0LPN4, E9PZQ0, E9Q401, F1LMY4, F1Q8X5, P0C7A6, P11716, P11881, P16960, P21817, P29994, P29995, P30957, P42694, P48553, Q0VEJ0, Q14571, Q14643, Q15413, Q1LVW0, Q24498, Q28C34, Q3TLI0, Q5F361, Q5RCP7, Q6NRC7, Q6NRD0, Q6NYU2, Q6QI06, Q6R327, Q7SXV1, Q7Z3V4, Q7ZUV0, Q7ZYD9, Q80UK0, Q86VW0, Q8BHL5, Q8BIK4, Q8BWW9

Diamond homologs: A2CG49, A8DYP0, F1M0Z1, O15068, O60229, O75962, P10911, P97924, Q0KL02, Q13009, Q14155, Q1LUA6, Q58EX7, Q5M7P4, Q60610, Q63406, Q64096, Q6GNM9, Q6GPX2, Q6KAU7, Q6P720, Q6XZF7, Q6ZPF3, Q7SX85, Q80U35, Q80UK0, Q86VW0, Q86VW2, Q86YR7, Q8IVF5, Q96PE2, Q96PX9, Q9CWR0, Q9H7P9

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

83 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance59
Likely benign1
Benign2

Top pathogenic / likely-pathogenic (0)

SpliceAI

4039 predictions. Top by Δscore:

VariantEffectΔscore
2:179112718:CCATA:Cdonor_loss1.0000
2:179112719:CATAC:Cdonor_loss1.0000
2:179112721:TACCC:Tdonor_loss1.0000
2:179112722:A:Tdonor_loss1.0000
2:179112722:AC:Adonor_gain1.0000
2:179112723:CC:Cdonor_gain1.0000
2:179112723:CCCAT:Cdonor_gain1.0000
2:179112727:T:Cdonor_gain1.0000
2:179112737:C:CTdonor_gain1.0000
2:179112738:T:TTdonor_gain1.0000
2:179112739:A:ACdonor_gain1.0000
2:179112740:C:CCdonor_gain1.0000
2:179112775:A:Cdonor_gain1.0000
2:179112842:AAAT:Aacceptor_gain1.0000
2:179112844:AT:Aacceptor_gain1.0000
2:179112846:C:CAacceptor_loss1.0000
2:179112846:C:CCacceptor_gain1.0000
2:179112847:T:Gacceptor_loss1.0000
2:179115147:A:ACdonor_gain1.0000
2:179115148:C:CCdonor_gain1.0000
2:179115148:CT:Cdonor_gain1.0000
2:179116712:T:Adonor_gain1.0000
2:179116787:CTGC:Cacceptor_gain1.0000
2:179117526:CCTTA:Cdonor_loss1.0000
2:179117527:CTTAC:Cdonor_loss1.0000
2:179117528:TTAC:Tdonor_loss1.0000
2:179117529:TA:Tdonor_loss1.0000
2:179117531:C:CGdonor_loss1.0000
2:179117609:CACAT:Cacceptor_gain1.0000
2:179117611:CAT:Cacceptor_gain1.0000

AlphaMissense

4582 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:179115156:A:GL583P1.000
2:179115240:C:TG555D1.000
2:179115241:C:GG555R1.000
2:179116768:A:GL516P1.000
2:179116777:A:GL513P1.000
2:179116779:C:AW512C1.000
2:179116779:C:GW512C1.000
2:179116781:A:GW512R1.000
2:179116781:A:TW512R1.000
2:179124422:A:GL370P1.000
2:179124455:A:GL359P1.000
2:179124533:A:GL333P1.000
2:179143680:A:GL254P1.000
2:179143803:C:TG213E1.000
2:179146402:C:AG213W1.000
2:179146402:C:GG213R1.000
2:179146402:C:TG213R1.000
2:179149348:A:GL177P1.000
2:179149380:A:CF166L1.000
2:179149380:A:TF166L1.000
2:179149381:A:GF166S1.000
2:179149382:A:GF166L1.000
2:179151293:C:AW156C1.000
2:179151293:C:GW156C1.000
2:179151295:A:GW156R1.000
2:179151295:A:TW156R1.000
2:179151321:C:TG147E1.000
2:179151339:A:GL141S1.000
2:179151366:A:CL132W1.000
2:179151366:A:GL132S1.000

dbSNP variants (sampled 300 via entrez): RS1000016803 (2:179130259 T>C), RS1000029501 (2:179185389 T>C), RS1000033542 (2:179219177 C>T), RS1000092106 (2:179163967 A>G), RS1000107596 (2:179184043 A>G), RS1000125204 (2:179123489 A>G), RS1000141624 (2:179184877 G>A), RS1000154018 (2:179130318 A>C,G), RS1000187913 (2:179147715 C>A), RS1000215131 (2:179200598 A>C,G), RS1000216833 (2:179226451 T>A,C), RS1000297574 (2:179225180 G>A), RS1000323090 (2:179225933 G>A), RS1000324970 (2:179157751 AATTT>A), RS1000337163 (2:179151891 A>G)

Disease associations

OMIM: gene MIM:621011 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

6 associations (top):

StudyTraitp-value
GCST001872_11Presence of antiphospholipid antibodies6.000000e-06
GCST003159_2Objective response to lithium treatment3.000000e-08
GCST003815_19Late-onset Alzheimer’s disease2.000000e-06
GCST005557_6Serum uric acid levels6.000000e-07
GCST009462_39Optic disc size6.000000e-09
GCST010002_405Refractive error1.000000e-70

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:1001870late-onset Alzheimers disease
EFO:0004761uric acid measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

39 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Aciddecreases expression3
Cyclosporinedecreases expression3
Cadmium Chloridedecreases expression, increases abundance, increases expression3
entinostatdecreases expression, affects cotreatment2
Panobinostataffects cotreatment, decreases expression2
aristolochic acid Idecreases expression1
GSK-J4increases expression1
TAK-243increases sumoylation1
methylmercuric chloridedecreases expression1
pirinixic acidaffects binding, decreases expression, increases activity1
trichostatin Aaffects cotreatment, decreases expression1
sodium arseniteincreases expression1
butyraldehydedecreases expression1
benzo(e)pyreneincreases methylation1
potassium chromate(VI)affects cotreatment, decreases expression1
nickel sulfateincreases expression1
epigallocatechin gallateaffects cotreatment, decreases expression1
pentanaldecreases expression1
di-n-butylphosphoric acidaffects expression1
CGP 52608affects binding, increases reaction1
K 7174increases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
abrinedecreases expression1
dorsomorphinaffects cotreatment, decreases expression1
Sunitinibincreases expression1
Cadmiumincreases abundance, increases expression1
Demecolcinedecreases expression1
Ketoconazoleincreases expression1
Methapyrileneincreases methylation1
Methyl Methanesulfonateincreases expression1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.