COL6A3
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Summary
COL6A3 (collagen type VI alpha 3 chain, HGNC:2213) is a protein-coding gene on chromosome 2q37.3, encoding Collagen alpha-3(VI) chain (P12111). Collagen VI acts as a cell-binding protein.
This gene encodes the alpha-3 chain, one of the three alpha chains of type VI collagen, a beaded filament collagen found in most connective tissues. The alpha-3 chain of type VI collagen is much larger than the alpha-1 and -2 chains. This difference in size is largely due to an increase in the number of subdomains, similar to von Willebrand Factor type A domains, that are found in the amino terminal globular domain of all the alpha chains. These domains have been shown to bind extracellular matrix proteins, an interaction that explains the importance of this collagen in organizing matrix components. Mutations in the type VI collagen genes are associated with Bethlem myopathy, a rare autosomal dominant proximal myopathy with early childhood onset. Mutations in this gene are also a cause of Ullrich congenital muscular dystrophy, also referred to as Ullrich scleroatonic muscular dystrophy, an autosomal recessive congenital myopathy that is more severe than Bethlem myopathy. Multiple transcript variants have been identified, but the full-length nature of only some of these variants has been described.
Source: NCBI Gene 1293 — RefSeq curated summary.
At a glance
- Gene–disease (curated): collagen 6-related myopathy (Definitive, ClinGen) — +6 more curated relationships
- GWAS associations: 19
- Clinical variants (ClinVar): 3,982 total — 113 pathogenic, 71 likely-pathogenic
- Phenotypes (HPO): 91
- Druggable target: yes
- Cancer driver (intOGen): loss-of-function (tumor-suppressor-like) across 1 cancer types
- MANE Select transcript:
NM_004369
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:2213 |
| Approved symbol | COL6A3 |
| Name | collagen type VI alpha 3 chain |
| Location | 2q37.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000163359 |
| Ensembl biotype | protein_coding |
| OMIM | 120250 |
| Entrez | 1293 |
Gene structure
Transcript identifiers
Ensembl transcripts: 25 — 13 protein_coding, 7 retained_intron, 3 protein_coding_CDS_not_defined, 2 nonsense_mediated_decay
ENST00000295550, ENST00000347401, ENST00000353578, ENST00000392003, ENST00000392004, ENST00000433762, ENST00000468792, ENST00000472056, ENST00000473258, ENST00000491233, ENST00000491769, ENST00000493475, ENST00000493608, ENST00000682405, ENST00000682957, ENST00000683145, ENST00000683155, ENST00000683348, ENST00000684508, ENST00000684597, ENST00000888366, ENST00000952249, ENST00000952250, ENST00000952251, ENST00000952252
RefSeq mRNA: 5 — MANE Select: NM_004369
NM_004369, NM_057164, NM_057165, NM_057166, NM_057167
CCDS: CCDS33409, CCDS33410, CCDS33411, CCDS33412, CCDS54439
Canonical transcript exons
ENST00000295550 — 44 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001073728 | 237344350 | 237344843 |
| ENSE00001073741 | 237374412 | 237375020 |
| ENSE00001073761 | 237378636 | 237379235 |
| ENSE00001073762 | 237380915 | 237381499 |
| ENSE00001073778 | 237387582 | 237388184 |
| ENSE00001073779 | 237376772 | 237377344 |
| ENSE00001073780 | 237371732 | 237372337 |
| ENSE00001073784 | 237394587 | 237395204 |
| ENSE00001266203 | 237368563 | 237369177 |
| ENSE00001339012 | 237396727 | 237396847 |
| ENSE00001910299 | 237413953 | 237414164 |
| ENSE00002207593 | 237359206 | 237359250 |
| ENSE00002210119 | 237357817 | 237357882 |
| ENSE00002220388 | 237366687 | 237367286 |
| ENSE00002222359 | 237363253 | 237363398 |
| ENSE00002239746 | 237342065 | 237342161 |
| ENSE00002247525 | 237361121 | 237361174 |
| ENSE00002249647 | 237354899 | 237354934 |
| ENSE00002276843 | 237361739 | 237361831 |
| ENSE00002287340 | 237357338 | 237357391 |
| ENSE00002295088 | 237359035 | 237359088 |
| ENSE00002298215 | 237364350 | 237364428 |
| ENSE00002303895 | 237365698 | 237366035 |
| ENSE00002306233 | 237360088 | 237360159 |
| ENSE00002315355 | 237358521 | 237358583 |
| ENSE00002317428 | 237359362 | 237359388 |
| ENSE00003462216 | 237325560 | 237325724 |
| ENSE00003462722 | 237353341 | 237353403 |
| ENSE00003464764 | 237340452 | 237341150 |
| ENSE00003467345 | 237347807 | 237347869 |
| ENSE00003468852 | 237345058 | 237345094 |
| ENSE00003530002 | 237352522 | 237352584 |
| ENSE00003530842 | 237333450 | 237333548 |
| ENSE00003543544 | 237346503 | 237346565 |
| ENSE00003553577 | 237348349 | 237348384 |
| ENSE00003568486 | 237350147 | 237350209 |
| ENSE00003578545 | 237351130 | 237351192 |
| ENSE00003579665 | 237336135 | 237336532 |
| ENSE00003585821 | 237345181 | 237345213 |
| ENSE00003589018 | 237348613 | 237348663 |
| ENSE00003638362 | 237339015 | 237339117 |
| ENSE00003680788 | 237344941 | 237344952 |
| ENSE00003681061 | 237334626 | 237334889 |
| ENSE00003897550 | 237324018 | 237324814 |
Expression profiles
Bgee: expression breadth ubiquitous, 264 present calls, max score 99.82.
FANTOM5 (CAGE): breadth broad, TPM avg 197.5488 / max 5141.0033, expressed in 885 samples.
FANTOM5 promoters (12 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 34711 | 119.8235 | 866 |
| 34710 | 70.1314 | 780 |
| 34715 | 3.2811 | 573 |
| 34714 | 1.4103 | 502 |
| 34688 | 1.0418 | 409 |
| 34698 | 0.5130 | 260 |
| 34713 | 0.4079 | 267 |
| 34709 | 0.3836 | 215 |
| 34712 | 0.2098 | 109 |
| 34716 | 0.1488 | 75 |
Top tissues by expression
292 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| stromal cell of endometrium | CL:0002255 | 99.82 | gold quality |
| visceral pleura | UBERON:0002401 | 99.69 | gold quality |
| skin of hip | UBERON:0001554 | 99.65 | gold quality |
| periodontal ligament | UBERON:0008266 | 99.65 | gold quality |
| layer of synovial tissue | UBERON:0007616 | 99.62 | gold quality |
| decidua | UBERON:0002450 | 99.58 | gold quality |
| synovial joint | UBERON:0002217 | 99.57 | gold quality |
| pleura | UBERON:0000977 | 99.54 | gold quality |
| parietal pleura | UBERON:0002400 | 99.54 | gold quality |
| pericardium | UBERON:0002407 | 99.52 | gold quality |
| saphenous vein | UBERON:0007318 | 99.52 | gold quality |
| urethra | UBERON:0000057 | 99.50 | gold quality |
| tibia | UBERON:0000979 | 99.47 | gold quality |
| cartilage tissue | UBERON:0002418 | 99.40 | gold quality |
| smooth muscle tissue | UBERON:0001135 | 99.33 | gold quality |
| mammary duct | UBERON:0001765 | 99.33 | gold quality |
| mammalian vulva | UBERON:0000997 | 99.19 | gold quality |
| cauda epididymis | UBERON:0004360 | 99.17 | gold quality |
| nipple | UBERON:0002030 | 99.15 | gold quality |
| endocervix | UBERON:0000458 | 99.14 | gold quality |
| myometrium | UBERON:0001296 | 99.14 | gold quality |
| gall bladder | UBERON:0002110 | 99.12 | gold quality |
| vena cava | UBERON:0004087 | 99.04 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 98.92 | gold quality |
| seminal vesicle | UBERON:0000998 | 98.90 | gold quality |
| mucosa of urinary bladder | UBERON:0001259 | 98.89 | gold quality |
| superficial temporal artery | UBERON:0001614 | 98.86 | gold quality |
| right ovary | UBERON:0002118 | 98.81 | gold quality |
| urinary bladder | UBERON:0001255 | 98.80 | gold quality |
| upper arm skin | UBERON:0004263 | 98.80 | gold quality |
Single-cell (SCXA)
Detected in 28 experiment(s), a significant marker in 27.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-MTAB-10662 | yes | 3212.04 |
| E-ENAD-27 | yes | 3178.06 |
| E-GEOD-75688 | yes | 2343.47 |
| E-MTAB-8322 | yes | 1699.64 |
| E-HCAD-24 | yes | 1603.58 |
| E-GEOD-130473 | yes | 1365.24 |
| E-CURD-126 | yes | 1314.52 |
| E-MTAB-6701 | yes | 1283.99 |
| E-HCAD-56 | yes | 946.30 |
| E-MTAB-10287 | yes | 110.06 |
| E-HCAD-30 | yes | 99.59 |
| E-HCAD-1 | yes | 90.85 |
| E-MTAB-8142 | yes | 89.04 |
| E-HCAD-10 | yes | 70.80 |
| E-MTAB-8410 | yes | 65.41 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): SMAD3, SMAD7
miRNA regulators (miRDB)
80 targeting COL6A3, 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-29A-3P | 100.00 | 73.11 | 1835 |
| HSA-MIR-29B-3P | 100.00 | 73.18 | 1833 |
| HSA-MIR-29C-3P | 100.00 | 73.15 | 1833 |
| HSA-MIR-8485 | 100.00 | 77.57 | 4731 |
| HSA-MIR-4262 | 100.00 | 73.26 | 3931 |
| HSA-MIR-3613-3P | 100.00 | 76.36 | 7965 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-181A-5P | 99.99 | 72.96 | 2995 |
| HSA-MIR-181B-5P | 99.99 | 72.97 | 2996 |
| HSA-MIR-181C-5P | 99.99 | 72.95 | 2996 |
| HSA-MIR-181D-5P | 99.99 | 73.04 | 2997 |
| HSA-MIR-568 | 99.98 | 69.86 | 2084 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-767-5P | 99.95 | 70.85 | 993 |
| HSA-MIR-4778-3P | 99.93 | 70.40 | 1818 |
| HSA-MIR-10527-5P | 99.91 | 72.28 | 3754 |
| HSA-MIR-5682 | 99.89 | 72.56 | 1005 |
| HSA-MIR-579-3P | 99.86 | 71.66 | 3628 |
| HSA-MIR-202-3P | 99.84 | 71.41 | 1290 |
| HSA-MIR-664B-3P | 99.84 | 71.65 | 3590 |
| HSA-MIR-6844 | 99.82 | 70.69 | 2423 |
| HSA-MIR-4668-5P | 99.79 | 70.58 | 3782 |
| HSA-MIR-148A-3P | 99.74 | 73.77 | 1700 |
| HSA-MIR-148B-3P | 99.74 | 73.75 | 1700 |
| HSA-MIR-152-3P | 99.74 | 73.75 | 1703 |
| HSA-MIR-4422 | 99.72 | 72.07 | 2908 |
| HSA-MIR-4530 | 99.69 | 66.47 | 1509 |
| HSA-MIR-4804-3P | 99.65 | 67.78 | 866 |
| HSA-MIR-5003-5P | 99.61 | 69.13 | 1624 |
| HSA-MIR-6716-5P | 99.56 | 68.62 | 1244 |
Literature-anchored findings (GeneRIF, showing 40)
- Postranslational processing of type VI collagen in articular cartilage was investigated: alpha3(VI) collagen C5 domain is initially incorporated into the newly formed type VI fibrils, but after secretion is cut and not in the mature pericellular matrix (PMID:11785962)
- Mutations in COL6A3 cause severe and mild phenotypes of Ullrich congenital muscular dystrophy. (PMID:11992252)
- Haplotype analysis clearly suggested linkage of Ullrich muscular dystrophy to the COL6A1/2 locus in two cases and to the COL6A3 loci in the third case. In the remaining nine patients, primary collagen VI involvement was excluded (PMID:12011280)
- The C-terminal Kunitz-type domain from the alpha3 chain of human type VI collagen (C5), a single amino-acid residue chain with three disulfide bridges, was refined at 0.9 A resolution in a monoclinic form (PMID:12077460)
- dominant mutations are common in Ullrich congenital muscular dystrophy (UCMD). (PMID:15563506)
- These results suggest that different alpha3(VI) chain isoforms, containing also domains of the N10-N7 region, are required for assembling a proper collagen VI network in the extracellular matrix. (PMID:15965965)
- the alpha3(VI) C5 domain is present in the extracellular matrix of SaOS-2 N6-C5 expressing cells and fibroblasts, which demonstrates that processing of the C-terminal region of the alpha3(VI) chain is not essential for microfibril formation (PMID:16613849)
- Col6A3 fusion with colony-stimulating factor-1 gene is associated with tenosynovial giant cell tumors. (PMID:17918257)
- Study reports 10 unrelated patients with a Ullrich congenital muscular dystrophy clinical phenotype and de novo dominant negative heterozygous splice mutations in COL6A1, COL6A2 and COL6A3. (PMID:18366090)
- in humans increased COL6A3 mRNA is associated with adipose tissue macrophage chemotaxis and inflammation and that weight gain (PMID:19837927)
- Data indicate that the aberrantly methylated and expressed genes in cancer process including IRS1 and collagen-related genes COL4A1, COL4A2 and COL6A3. (PMID:23818951)
- Mutations in each of the three collagen VI genes, COL6A1, COL6A2 and COL6A3, cause four types of muscle disorders: Ullrich congenital muscular dystrophy, Bethlem myopathy, limb-girdle muscular dystrophy, and autosomal recessive myosclerosis. (Review) (PMID:24443028)
- Data indicate that endotrophin (COL6alpha3) levels are higher in diabetic patients. (PMID:24647224)
- Increased adipocyte COL6A3 expression associates with insulin resistance; COL6A3 mRNA associates with small adipocyte size (PMID:24719315)
- In UCMD, 1 mutation was indentified in Chinese patients. (PMID:24801232)
- Parental mosaicism was confirmed in the four families through quantitative analysis of the ratio of mutant versus wild-type allele (COL6A1, COL6A2, and COL6A3) in genomic DNA from various tissues; consistent with somatic mosaicism, parental samples had lower ratios of mutant versus wild-type allele compared with the fully heterozygote offspring. (PMID:25204870)
- This study showed that COL6A3 expression appeared to be lowered in obesity, whereas diet- and surgery-induced weight loss increased COL6A3 expression. (PMID:25337653)
- The heterozygous c.3353A>C mutation in exon 8 of the COL6A3 gene is associated with the Bethlem myopathy with autosomal dominant inheritance. (PMID:25449070)
- COL6A mutations were identified in eight cases having clinical phenotypes of Ullrich congenital muscular dystrophy (UCMD) or Bethlem myopathy (BM). (PMID:25635128)
- Recessive mutations in the alpha3 (VI) collagen gene COL6A3 cause early-onset isolated dystonia. (PMID:26004199)
- Data indicate that circulating plasma COL6A3 in colorectal cancer (CRC) patients was upregulated significantly comparing with healthy peoples. (PMID:26338966)
- COL6A3-associated dystonia represents a newly identified autosomal-recessive entity characterized clinically by an early symptom onset with variable distribution. (PMID:26687111)
- In conjunction with the relatively high frequency of homozygous carriers of reported mutations in publically available databases, our data call a causal role for variants in COL6A3 in isolated dystonia into question. (PMID:26872670)
- Overexpression of endotrophin led to a fibrotic program in white adipose tissue (WAT) adipocytes, a proinflammatory program in (WAT) macrophages, and upregulation of both profibrotic and proinflammatory genes in the stromal vascular fraction isolated from WAT. (PMID:27729337)
- Patients with chronic kidney disease (CKD) are at increased risk of end-stage renal disease (ESRD) and early mortality. Serum endotrophin, a COL6A3 cleavage product was significantly associated with progression to ESRD. (PMID:28403201)
- Altered white matter structure especially in various parts of the cerebello-thalamo-cortical network in dystonia patients with COL6A3 mutations. (PMID:29066004)
- COL6A mutation Congenital Muscular Dystrophy showed the muscle weakness and poor respiratory function. (PMID:29465610)
- Study found COL6A3 expression to be downregulated and associated with poor prognosis in human colorectal cancer (CRC). In silico analysis of cell typespecific gene expression and COL6A3 knockout experiments indicated the clinical relevance of COL6A3 in the development of CRC. (PMID:29620224)
- two compound heterozygous mutations in COL6A3 gene lead to myopathy from Ullrich congenital muscular dystrophy and Bethlem myopathy spectrum. (PMID:29894794)
- The morphology and immunophenotype of all 6 cases was analogous to those with the canonical COL1A1-PDGFB fusion; none of the cases showed fibrosarcomatous transformation. This study illustrates that the COL6A3-PDGFD fusion product is rare in dermatofibrosarcoma protuberans, and associated with an apparent predilection for breast (PMID:30014607)
- COL6A3 could influence the viability and angiogenesis of bladder cancer cells. COL6A3 may have a certain relationship with the TGF-beta/Smad-induced EMT process. (PMID:30066698)
- two patients were diagnosed as spontaneous collagen type -related myopathy and carried different variants of COL6A3 gene (PMID:30695889)
- The most frequent mutation in a series of 16 Bethlem myopathy patients was the COL6A3 variant c.7447A>G, p.Lys2486Glu, with either an homozygous or compound heterozygous presentation. Five new mutations were found in COL6A1 gene and other two in COL6A3 gene, all of them with a dominant heritability pattern. (PMID:30706156)
- Human endotrophin as a driver of malignant tumor growth. (PMID:30896449)
- overexpressed circCOL6A3 promoted cell proliferation, migration and apoptosis of gastric cancer through rescission of miR-3064-5p-induced inhibitory effect on COL6A3; study will furnish theoretical grounds for future clinical diagnosis and treatment of GC patients (PMID:31122696)
- An association was determined between COL6A3 polymorphisms and lung cancer risk in a Chinese population. (PMID:31286980)
- study found that COL6A3 variants were associated with risk of esophageal cancer in the Chinese population (PMID:31425922)
- COL6A3 mutation associated early-onset isolated dystonia (DYT)-27: Report of a new case and review of published literature. (PMID:32037012)
- A Fragment of Collagen Type VI alpha-3 chain is Elevated in Serum from Patients with Gastrointestinal Disorders. (PMID:32245981)
- Coexistence of digenic mutations in the collagen VI genes (COL6A1 and COL6A3) leads to Bethlem myopathy. (PMID:32389683)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | ENSDARG00000095915 | |
| mus_musculus | Col6a3 | ENSMUSG00000048126 |
| rattus_norvegicus | Col6a3 | ENSRNOG00000019648 |
Paralogs (12): COCH (ENSG00000100473), COL12A1 (ENSG00000111799), MATN4 (ENSG00000124159), MATN3 (ENSG00000132031), MATN2 (ENSG00000132561), MATN1 (ENSG00000162510), VWA2 (ENSG00000165816), COL6A5 (ENSG00000172752), VWA1 (ENSG00000179403), COL14A1 (ENSG00000187955), VIT (ENSG00000205221), COL6A6 (ENSG00000206384)
Protein
Protein identifiers
Collagen alpha-3(VI) chain — P12111 (reviewed: P12111)
All UniProt accessions (7): A0A804HKC7, A0A804HKQ0, A0A804HKS9, C9JNG9, D9ZGF2, E7ENL6, P12111
UniProt curated annotations — full annotation on UniProt →
Function. Collagen VI acts as a cell-binding protein.
Subunit / interactions. Trimers composed of three different chains: alpha-1(VI), alpha-2(VI), and alpha-3(VI) or alpha-5(VI) or alpha-6(VI).
Subcellular location. Secreted. Extracellular space. Extracellular matrix.
Post-translational modifications. Prolines at the third position of the tripeptide repeating unit (G-X-Y) are hydroxylated in some or all of the chains. The N-terminus is blocked.
Disease relevance. Bethlem myopathy 1C (BTHLM1C) [MIM:620726] A form of Bethlem myopathy, a slowly progressive muscular dystrophy characterized by joint contractures, most frequently affecting the elbows and ankles, and muscle weakness and wasting involving the proximal and extensor muscles more than the distal and flexor ones. The clinical onset more often occurs in childhood or adulthood, but it can be prenatal with decreased fetal movements or neonatal with hypotonia. The hallmark of Bethlem myopathy is long finger flexion contractures. BTHLM1C inheritance is autosomal dominant. The disease is caused by variants affecting the gene represented in this entry. Ullrich congenital muscular dystrophy 1C (UCMD1C) [MIM:620728] A form of Ullrich congenital muscular dystrophy, a disease characterized by generalized muscle weakness and striking hypermobility of distal joints in conjunction with variable contractures of more proximal joints and normal intelligence. Additional findings may include kyphoscoliosis, protruded calcanei, and follicular hyperkeratosis (rough skin). More severely affected patients manifest at birth and never achieve independent ambulation, while patients with milder phenotypes might maintain ambulation into adulthood. Inheritance can be autosomal dominant or autosomal recessive. The disease is caused by variants affecting the gene represented in this entry. Dystonia 27 (DYT27) [MIM:616411] A form of dystonia, a disorder defined by the presence of sustained involuntary muscle contraction, often leading to abnormal postures. DYT27 is an autosomal recessive form characterized by segmental isolated dystonia involving the face, neck, bulbar muscles, and upper limbs. The disease is caused by variants affecting the gene represented in this entry.
Similarity. Belongs to the type VI collagen family.
Isoforms (5)
| UniProt ID | Names | Canonical? |
|---|---|---|
| P12111-1 | 1 | yes |
| P12111-2 | 2 | |
| P12111-3 | 3 | |
| P12111-4 | 4 | |
| P12111-5 | 5 |
RefSeq proteins (5): NP_004360, NP_476505, NP_476506, NP_476507, NP_476508 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR002035 | VWF_A | Domain |
| IPR002223 | Kunitz_BPTI | Domain |
| IPR003961 | FN3_dom | Domain |
| IPR008160 | Collagen | Repeat |
| IPR013783 | Ig-like_fold | Homologous_superfamily |
| IPR020901 | Prtase_inh_Kunz-CS | Conserved_site |
| IPR036116 | FN3_sf | Homologous_superfamily |
| IPR036465 | vWFA_dom_sf | Homologous_superfamily |
| IPR036880 | Kunitz_BPTI_sf | Homologous_superfamily |
| IPR041900 | vWA_collagen_alpha3-VI-like | Domain |
| IPR050525 | ECM_Assembly_Org | Family |
Pfam: PF00014, PF00092, PF01391
UniProt features (164 total): sequence variant 39, domain 19, sequence conflict 15, glycosylation site 15, compositionally biased region 13, helix 12, modified residue 12, strand 11, region of interest 8, splice variant 6, short sequence motif 5, disulfide bond 4, turn 2, signal peptide 1, chain 1, site 1
Structure
Experimental structures (PDB)
6 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 1KTH | X-RAY DIFFRACTION | 0.95 |
| 2KNT | X-RAY DIFFRACTION | 1.2 |
| 1KNT | X-RAY DIFFRACTION | 1.6 |
| 6SNK | X-RAY DIFFRACTION | 2.2 |
| 9GTU | ELECTRON MICROSCOPY | 3.14 |
| 1KUN | SOLUTION NMR |
Predicted structure (AlphaFold)
No AlphaFold model available for P12111 — 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.
Catalytic / active sites (1): 3122–3123 (reactive bond)
Post-translational modifications (12): 433, 1225, 2100, 2103, 2206, 2209, 2212, 2239, 2316, 2319, 2322, 2337
Disulfide bonds (4): 2087, 3112–3162, 3121–3145, 3137–3158
Glycosylation sites (15): 108, 116, 202, 251, 2079, 2103, 2209, 2212, 2322, 2331, 2337, 2558, 2677, 2861, 3037
Function
Pathways and Gene Ontology
Reactome pathways
8 pathways
| ID | Pathway |
|---|---|
| R-HSA-1442490 | Collagen degradation |
| R-HSA-1650814 | Collagen biosynthesis and modifying enzymes |
| R-HSA-186797 | Signaling by PDGF |
| R-HSA-2022090 | Assembly of collagen fibrils and other multimeric structures |
| R-HSA-216083 | Integrin cell surface interactions |
| R-HSA-3000178 | ECM proteoglycans |
| R-HSA-419037 | NCAM1 interactions |
| R-HSA-8948216 | Collagen chain trimerization |
MSigDB gene sets: 492 (showing top):
TGGTGCT_MIR29A_MIR29B_MIR29C, TURASHVILI_BREAST_LOBULAR_CARCINOMA_VS_DUCTAL_NORMAL_UP, MODULE_255, GOCC_COLLAGEN_TRIMER, MODULE_317, REACTOME_NCAM_SIGNALING_FOR_NEURITE_OUT_GROWTH, MODULE_329, GGGTGGRR_PAX4_03, HUMMERICH_SKIN_CANCER_PROGRESSION_UP, CLASPER_LYMPHATIC_VESSELS_DURING_METASTASIS_DN, GOBP_MUSCLE_STRUCTURE_DEVELOPMENT, WOO_LIVER_CANCER_RECURRENCE_UP, BLALOCK_ALZHEIMERS_DISEASE_UP, GOMF_EXTRACELLULAR_MATRIX_STRUCTURAL_CONSTITUENT, LANDIS_ERBB2_BREAST_PRENEOPLASTIC_DN
GO Biological Process (6): cell adhesion (GO:0007155), muscle organ development (GO:0007517), response to UV (GO:0009411), response to glucose (GO:0009749), phosphatidylinositol 3-kinase/protein kinase B signal transduction (GO:0043491), neuron apoptotic process (GO:0051402)
GO Molecular Function (4): serine-type endopeptidase inhibitor activity (GO:0004867), extracellular matrix structural constituent conferring tensile strength (GO:0030020), protein binding (GO:0005515), peptidase inhibitor activity (GO:0030414)
GO Cellular Component (9): extracellular region (GO:0005576), collagen type VI trimer (GO:0005589), obsolete extracellular space (GO:0005615), endoplasmic reticulum lumen (GO:0005788), extracellular matrix (GO:0031012), sarcolemma (GO:0042383), extracellular exosome (GO:0070062), extracellular vesicle (GO:1903561), collagen trimer (GO:0005581)
Reactome top-level categories
Rollup of top-6 pathways:
| Category | Pathways |
|---|---|
| Collagen formation | 2 |
| Extracellular matrix organization | 2 |
| Degradation of the extracellular matrix | 1 |
| Signaling by Receptor Tyrosine Kinases | 1 |
| NCAM signaling for neurite out-growth | 1 |
| Collagen biosynthesis and modifying enzymes | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular process | 1 |
| animal organ development | 1 |
| muscle structure development | 1 |
| response to light stimulus | 1 |
| response to hexose | 1 |
| intracellular signaling cassette | 1 |
| apoptotic process | 1 |
| serine-type endopeptidase activity | 1 |
| endopeptidase inhibitor activity | 1 |
| extracellular matrix structural constituent | 1 |
| binding | 1 |
| enzyme inhibitor activity | 1 |
| peptidase activity | 1 |
| peptidase regulator activity | 1 |
| cellular anatomical structure | 1 |
| collagen beaded filament | 1 |
| von-Willerbrand-factor-A-domain-rich collagen trimer | 1 |
| extracellular protein-containing complex | 1 |
| endoplasmic reticulum | 1 |
| intracellular organelle lumen | 1 |
| external encapsulating structure | 1 |
| plasma membrane | 1 |
| extracellular vesicle | 1 |
| extracellular region | 1 |
| vesicle | 1 |
| extracellular membrane-bounded organelle | 1 |
| protein-containing complex | 1 |
Protein interactions and networks
STRING
2220 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| COL6A3 | COL6A2 | P12110 | 978 |
| COL6A3 | COL6A1 | P12109 | 963 |
| COL6A3 | COL1A1 | P02452 | 875 |
| COL6A3 | COL3A1 | P02461 | 812 |
| COL6A3 | COL5A2 | P05997 | 792 |
| COL6A3 | COL1A2 | P02464 | 772 |
| COL6A3 | LUM | P51884 | 719 |
| COL6A3 | BGN | P13247 | 705 |
| COL6A3 | LAMB1 | P07942 | 695 |
| COL6A3 | FN1 | P02751 | 687 |
| COL6A3 | COL11A1 | P12107 | 675 |
| COL6A3 | FBN1 | P35555 | 653 |
| COL6A3 | POSTN | Q15063 | 653 |
| COL6A3 | HDLBP | Q00341 | 649 |
| COL6A3 | PFKL | P17858 | 640 |
IntAct
28 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| FBXO2 | TMEM131L | psi-mi:“MI:0914”(association) | 0.530 |
| LAIR2 | LAMA5 | psi-mi:“MI:0914”(association) | 0.530 |
| LGALS1 | PODXL | psi-mi:“MI:0914”(association) | 0.530 |
| PDIA3 | COL6A3 | psi-mi:“MI:0408”(disulfide bond) | 0.440 |
| TK2 | psi-mi:“MI:0915”(physical association) | 0.400 | |
| COL6A3 | COL5A1 | psi-mi:“MI:0915”(physical association) | 0.370 |
| VWA8 | psi-mi:“MI:0914”(association) | 0.350 | |
| PGRMC1 | psi-mi:“MI:0914”(association) | 0.350 | |
| NEK4 | E2F8 | psi-mi:“MI:0914”(association) | 0.350 |
| APBB1 | SSPOP | psi-mi:“MI:0914”(association) | 0.350 |
| GRN | OPA1 | psi-mi:“MI:0914”(association) | 0.350 |
| Creld2 | P4HB | psi-mi:“MI:0914”(association) | 0.350 |
| BMI1 | HMGB1P1 | psi-mi:“MI:0914”(association) | 0.350 |
| LAIR2 | AGRN | psi-mi:“MI:0914”(association) | 0.350 |
| C1QTNF1 | CALU | psi-mi:“MI:0914”(association) | 0.350 |
| MRPS23 | MYH7B | psi-mi:“MI:0914”(association) | 0.350 |
| ATF3 | ILVBL | psi-mi:“MI:0914”(association) | 0.350 |
| GATA2 | ILVBL | psi-mi:“MI:0914”(association) | 0.350 |
| ATF2 | ABLIM1 | psi-mi:“MI:0914”(association) | 0.350 |
| ATF3 | TMEM223 | psi-mi:“MI:0914”(association) | 0.350 |
| CTNNA1 | MYO1G | psi-mi:“MI:0914”(association) | 0.350 |
| STAT3 | IGF2BP3 | psi-mi:“MI:0914”(association) | 0.350 |
| alsD | COL6A3 | psi-mi:“MI:0915”(physical association) | 0.000 |
| lsrA | COL6A3 | psi-mi:“MI:0915”(physical association) | 0.000 |
| COL6A3 | DYSF | psi-mi:“MI:0915”(physical association) | 0.000 |
BioGRID (19): COL6A3 (Affinity Capture-MS), COL6A3 (Affinity Capture-MS), COL6A3 (Affinity Capture-MS), COL6A3 (Two-hybrid), COL6A3 (Affinity Capture-MS), COL6A3 (Affinity Capture-MS), COL6A3 (Affinity Capture-MS), COL6A3 (Affinity Capture-MS), LDHB (Cross-Linking-MS (XL-MS)), RPS20 (Cross-Linking-MS (XL-MS)), COL6A3 (Affinity Capture-MS), COL6A3 (Cross-Linking-MS (XL-MS)), COL6A3 (Cross-Linking-MS (XL-MS)), COL6A3 (Affinity Capture-MS), COL6A3 (Cross-Linking-MS (XL-MS))
ESM2 similar proteins: A2AX52, A6H584, A6NMZ7, A6X935, A8TX70, E1BMV3, E7FF10, O00339, O02668, O08746, O55123, O89029, P05099, P06681, P12111, P15989, P19823, P19827, P21180, P21941, P51942, P79263, P97278, P97279, Q0IIH7, Q0V8T0, Q0V8T5, Q0V8T6, Q0V8T7, Q0VCM5, Q14624, Q21540, Q29052, Q3SYW2, Q3T052, Q5GFL6, Q61702, Q61703, Q6DCQ6, Q70UZ7
Diamond homologs: A0A131MBU3, P12111, A2AX52, A6H584, A6NMZ7, A6QLN9, A8TX70, E7FF10, O00339, O08746, O42401, O75578, O89029, P05099, P05555, P11215, P15989, P20701, P20702, P34576, P51942, P61625, Q02388, Q13349, Q21281, Q21540, Q28902, Q3V0T4, Q63870, Q642A6, Q6PCB0, Q6UXI7, Q8C6K9, Q8NFW1, Q8R2Z5, Q90615, Q91145, Q923P0, Q95LI2, Q96P44
SIGNOR signaling
1 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| COL6A3 | up-regulates | ECM_synthesis |
Disease & clinical
Cancer significance
From intOGen — cancer-driver classification: loss-of-function (tumor-suppressor-like) across 1 cancer types — MEL.
Clinical variants and AI predictions
ClinVar
3982 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 113 |
| Likely pathogenic | 71 |
| Uncertain significance | 1727 |
| Likely benign | 1071 |
| Benign | 186 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1012690 | NM_004369.4(COL6A3):c.6115C>T (p.Gln2039Ter) | Pathogenic |
| 1027374 | NM_004369.4(COL6A3):c.6210+5G>A | Pathogenic |
| 1069649 | NM_004369.4(COL6A3):c.6114dup (p.Gln2039fs) | Pathogenic |
| 1071178 | NC_000002.11:g.(?237481970)(238305470_?)del | Pathogenic |
| 1072049 | NM_004369.4(COL6A3):c.7112del (p.Gly2371fs) | Pathogenic |
| 1075768 | NM_004369.4(COL6A3):c.6283-1G>A | Pathogenic |
| 1076925 | NM_004369.4(COL6A3):c.2362C>T (p.Gln788Ter) | Pathogenic |
| 1298861 | NM_004369.4(COL6A3):c.5174A>C (p.His1725Pro) | Pathogenic |
| 1328286 | NM_004369.4(COL6A3):c.6210+1G>T | Pathogenic |
| 1332842 | NM_004369.4(COL6A3):c.7382del (p.Ala2461fs) | Pathogenic |
| 1366422 | NM_004369.4(COL6A3):c.7648C>T (p.Gln2550Ter) | Pathogenic |
| 1389288 | NM_004369.4(COL6A3):c.183del (p.Leu62fs) | Pathogenic |
| 1397705 | NM_004369.4(COL6A3):c.9160_9163dup (p.His3055fs) | Pathogenic |
| 1428861 | NM_004369.4(COL6A3):c.7174+1del | Pathogenic |
| 1435141 | NM_004369.4(COL6A3):c.865G>T (p.Glu289Ter) | Pathogenic |
| 1451383 | NM_004369.4(COL6A3):c.1940C>A (p.Ser647Ter) | Pathogenic |
| 1452162 | NM_004369.4(COL6A3):c.9384G>A (p.Trp3128Ter) | Pathogenic |
| 1452977 | NM_004369.4(COL6A3):c.2367del (p.Ile789fs) | Pathogenic |
| 1456368 | NM_004369.4(COL6A3):c.399del (p.Ala134fs) | Pathogenic |
| 1459939 | NM_004369.4(COL6A3):c.3400C>T (p.Gln1134Ter) | Pathogenic |
| 1510897 | NM_004369.4(COL6A3):c.6188A>G (p.Tyr2063Cys) | Pathogenic |
| 1679308 | NM_004369.4(COL6A3):c.8481del (p.Leu2828fs) | Pathogenic |
| 1691283 | NM_004369.4(COL6A3):c.6283-2A>G | Pathogenic |
| 17150 | NM_004369.4(COL6A3):c.6930+5G>A | Pathogenic |
| 17151 | NM_004369.4(COL6A3):c.1393C>T (p.Arg465Ter) | Pathogenic |
| 17153 | NM_004369.4(COL6A3):c.6156+1_6156+2delinsTC | Pathogenic |
| 17154 | NM_004369.4(COL6A3):c.5177T>G (p.Leu1726Arg) | Pathogenic |
| 1901013 | NM_004369.4(COL6A3):c.2250del (p.Thr751fs) | Pathogenic |
| 192263 | NM_004369.4(COL6A3):c.8966-1G>C | Pathogenic |
| 194744 | NM_004369.4(COL6A3):c.6239G>A (p.Gly2080Asp) | Pathogenic |
SpliceAI
5993 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 2:237336129:TCTTA:T | donor_loss | 1.0000 |
| 2:237336130:CTTAC:C | donor_loss | 1.0000 |
| 2:237336131:TTA:T | donor_loss | 1.0000 |
| 2:237336132:T:TG | donor_loss | 1.0000 |
| 2:237336133:A:AC | donor_gain | 1.0000 |
| 2:237336133:AC:A | donor_gain | 1.0000 |
| 2:237336134:C:CA | donor_loss | 1.0000 |
| 2:237336134:C:CC | donor_gain | 1.0000 |
| 2:237336134:CC:C | donor_gain | 1.0000 |
| 2:237336246:CAG:C | donor_gain | 1.0000 |
| 2:237336528:CATTT:C | acceptor_gain | 1.0000 |
| 2:237336529:ATTT:A | acceptor_gain | 1.0000 |
| 2:237336531:TT:T | acceptor_gain | 1.0000 |
| 2:237336533:C:CA | acceptor_loss | 1.0000 |
| 2:237336534:T:G | acceptor_loss | 1.0000 |
| 2:237339013:A:AC | donor_gain | 1.0000 |
| 2:237339014:C:CC | donor_gain | 1.0000 |
| 2:237339014:CA:C | donor_gain | 1.0000 |
| 2:237339014:CACTT:C | donor_gain | 1.0000 |
| 2:237340450:A:AC | donor_gain | 1.0000 |
| 2:237340451:C:CG | donor_gain | 1.0000 |
| 2:237340451:CTG:C | donor_gain | 1.0000 |
| 2:237345090:CATTG:C | acceptor_gain | 1.0000 |
| 2:237346497:A:AC | donor_gain | 1.0000 |
| 2:237346497:ACTT:A | donor_loss | 1.0000 |
| 2:237346498:C:CC | donor_gain | 1.0000 |
| 2:237346499:TTA:T | donor_loss | 1.0000 |
| 2:237346500:TA:T | donor_loss | 1.0000 |
| 2:237346501:A:AC | donor_gain | 1.0000 |
| 2:237346501:ACAG:A | donor_gain | 1.0000 |
AlphaMissense
20696 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 2:237344682:C:G | A2446P | 0.999 |
| 2:237344810:A:G | L2403P | 0.998 |
| 2:237367248:A:G | S1647P | 0.998 |
| 2:237367254:C:G | D1645H | 0.998 |
| 2:237367259:A:G | L1643P | 0.998 |
| 2:237374889:C:G | A1068P | 0.998 |
| 2:237344639:A:C | F2460C | 0.997 |
| 2:237344687:C:G | R2444P | 0.997 |
| 2:237344701:G:C | C2439W | 0.997 |
| 2:237344703:A:G | C2439R | 0.997 |
| 2:237367152:C:A | G1679W | 0.997 |
| 2:237367247:G:A | S1647F | 0.997 |
| 2:237367253:T:A | D1645V | 0.997 |
| 2:237368832:A:G | L1544P | 0.997 |
| 2:237368859:C:G | R1535P | 0.997 |
| 2:237368861:A:C | S1534R | 0.997 |
| 2:237368861:A:T | S1534R | 0.997 |
| 2:237368863:T:G | S1534R | 0.997 |
| 2:237372203:C:G | A1272P | 0.997 |
| 2:237344702:C:G | C2439S | 0.996 |
| 2:237344703:A:T | C2439S | 0.996 |
| 2:237360123:C:A | G2083C | 0.996 |
| 2:237367140:A:C | Y1683D | 0.996 |
| 2:237367148:A:G | L1680P | 0.996 |
| 2:237368860:G:T | R1535S | 0.996 |
| 2:237372027:G:C | S1330R | 0.996 |
| 2:237372027:G:T | S1330R | 0.996 |
| 2:237372029:T:G | S1330R | 0.996 |
| 2:237374996:A:G | F1032S | 0.996 |
| 2:237344483:G:T | A2512D | 0.995 |
dbSNP variants (sampled 300 via entrez): RS1000053324 (2:237362707 C>T), RS1000071529 (2:237337830 G>C,T), RS1000077065 (2:237337885 C>T), RS1000120402 (2:237401725 C>T), RS1000183863 (2:237329271 T>C,G), RS1000191731 (2:237409390 G>C), RS1000244881 (2:237370013 A>T), RS1000278811 (2:237373248 G>A), RS1000294796 (2:237407838 C>G), RS1000307843 (2:237409205 A>T), RS1000343675 (2:237396659 A>G,T), RS1000377460 (2:237380325 T>C,G), RS1000414948 (2:237403399 T>C), RS1000419345 (2:237364681 A>G), RS1000420494 (2:237373381 C>A)
Disease associations
OMIM: gene MIM:120250 | disease phenotypes: MIM:158810, MIM:254090, MIM:616411, MIM:620726, MIM:620728, MIM:605259, MIM:117000, MIM:604320
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| Bethlem myopathy 1A | Definitive | Semidominant |
| Ullrich congenital muscular dystrophy 1C | Definitive | Autosomal recessive |
| Ullrich congenital muscular dystrophy 1A | Strong | Semidominant |
| dystonia 27 | Strong | Autosomal recessive |
| Bethlem myopathy | Supportive | Autosomal dominant |
| Ullrich congenital muscular dystrophy | Supportive | Autosomal dominant |
ClinGen Gene-Disease Validity (3)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| collagen 6-related myopathy | Definitive | AD |
| collagen 6-related myopathy | Definitive | AR |
| dystonia 27 | Limited | AR |
Mondo (19): Bethlem myopathy 1A (MONDO:0024530), Ullrich congenital muscular dystrophy 1A (MONDO:0009681), dystonia 27 (MONDO:0014627), dilated cardiomyopathy (MONDO:0005021), collagen 6-related myopathy (MONDO:0100225), limb-girdle muscular dystrophy (MONDO:0016971), Bethlem myopathy 1C (MONDO:0958234), Ullrich congenital muscular dystrophy 1C (MONDO:0958236), myopathy (MONDO:0005336), breast ductal adenocarcinoma (MONDO:0005590), intellectual disability (MONDO:0001071), muscular dystrophy (MONDO:0020121), congenital contractures (MONDO:0022823), muscle tissue disorder (MONDO:0003939), Bethlem myopathy (MONDO:0008029)
Orphanet (10): Bethlem muscular dystrophy (Orphanet:610), Primary dystonia, DYT27 type (Orphanet:464440), Ullrich congenital muscular dystrophy (Orphanet:75840), Dilated cardiomyopathy (Orphanet:217604), Limb-girdle muscular dystrophy (Orphanet:263), Muscular dystrophy (Orphanet:98473), Spinocerebellar ataxia type 13 (Orphanet:98768), Congenital myopathy (Orphanet:97245), Autosomal recessive distal hereditary motor neuropathy (Orphanet:140468), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)
HPO phenotypes
91 total (30 of 91 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000174 | Abnormal palate morphology |
| HP:0000347 | Micrognathia |
| HP:0000467 | Neck muscle weakness |
| HP:0000470 | Short neck |
| HP:0000473 | Torticollis |
| HP:0000565 | Esotropia |
| HP:0000962 | Hyperkeratosis |
| HP:0001073 | Cigarette-paper scars |
| HP:0001181 | Adducted thumb |
| HP:0001220 | Interphalangeal joint contracture of finger |
| HP:0001238 | Slender finger |
| HP:0001239 | Wrist flexion contracture |
| HP:0001252 | Hypotonia |
| HP:0001270 | Motor delay |
| HP:0001288 | Gait disturbance |
| HP:0001290 | Generalized hypotonia |
| HP:0001324 | Muscle weakness |
| HP:0001371 | Flexion contracture |
| HP:0001374 | Congenital hip dislocation |
| HP:0001382 | Joint hypermobility |
| HP:0001558 | Decreased fetal movement |
| HP:0001771 | Achilles tendon contracture |
| HP:0002086 | Abnormality of the respiratory system |
| HP:0002174 | Postural tremor |
| HP:0002345 | Action tremor |
| HP:0002356 | Writer’s cramp |
| HP:0002359 | Frequent falls |
| HP:0002451 | Limb dystonia |
GWAS associations
19 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001166_7 | Aging (time to event) | 8.000000e-06 |
| GCST004748_77 | Lung cancer | 7.000000e-06 |
| GCST005170_25 | Intraocular pressure | 1.000000e-08 |
| GCST005195_84 | Coronary artery disease | 3.000000e-08 |
| GCST005580_11 | Intraocular pressure | 6.000000e-15 |
| GCST005580_241 | Intraocular pressure | 1.000000e-16 |
| GCST006979_95 | Heel bone mineral density | 7.000000e-17 |
| GCST007096_206 | Pulse pressure | 5.000000e-08 |
| GCST008987_1 | HDL cholesterol | 1.000000e-06 |
| GCST008988_2 | LDL cholesterol | 1.000000e-06 |
| GCST009197_11 | Cortex volume | 3.000000e-06 |
| GCST009303_15 | Abstraction and mental flexibility | 5.000000e-06 |
| GCST009879_6 | Coronary artery disease | 3.000000e-28 |
| GCST010476_6 | Myocardial infarction | 1.000000e-24 |
| GCST010477_3 | Hypertension | 4.000000e-07 |
| GCST010478_11 | Chronic kidney disease | 3.000000e-07 |
| GCST010836_7 | Ischemic stroke | 1.000000e-08 |
| GCST010866_5 | Coronary artery disease | 4.000000e-09 |
| GCST90013466_68 | Height | 2.000000e-08 |
EFO canonical traits (7, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0022597 | aging |
| EFO:0004695 | intraocular pressure measurement |
| EFO:0009270 | heel bone mineral density |
| EFO:0005763 | pulse pressure measurement |
| EFO:0004612 | high density lipoprotein cholesterol measurement |
| EFO:0004611 | low density lipoprotein cholesterol measurement |
| EFO:0009332 | executive function measurement |
MeSH disease descriptors (9)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D018270 | Carcinoma, Ductal, Breast | C04.557.470.200.025.232.500; C04.557.470.615.132.500; C04.588.180.390; C17.800.090.500.390 |
| D002311 | Cardiomyopathy, Dilated | C14.280.195.160; C14.280.238.070; C16.320.488.750 |
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| D009135 | Muscular Diseases | C05.651; C10.668.491 |
| D009136 | Muscular Dystrophies | C05.651.534.500; C10.668.491.175.500; C16.320.577 |
| D049288 | Muscular Dystrophies, Limb-Girdle | C05.651.534.500.280; C10.668.491.175.500.149; C16.320.577.280 |
| C535436 | Bethlem myopathy (supp.) | |
| C537521 | Scleroatonic muscular dystrophy (supp.) | |
| C537195 | Spinocerebellar ataxia 13 (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL2364188 (PROTEIN COMPLEX GROUP)
PharmGKB: 1 entry (VIP=true, CPIC=false)
PharmGKB variants
1 variants.
| Variant | Genes | Level | Score | #Clin annots | Drugs |
|---|---|---|---|---|---|
| rs12622722 | COL6A3 | 0.00 | 0 |
CTD chemical–gene interactions
68 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects cotreatment, increases expression, decreases expression | 7 |
| Cyclosporine | affects cotreatment, decreases reaction, increases response to substance, decreases expression, increases methylation | 4 |
| bisphenol A | decreases methylation, increases expression, affects cotreatment, affects methylation, decreases expression | 3 |
| sodium arsenite | increases abundance, increases expression, affects cotreatment, decreases expression | 3 |
| Benzo(a)pyrene | decreases expression, decreases methylation, increases expression, increases methylation | 3 |
| Cadmium Chloride | decreases expression, increases abundance, increases expression | 3 |
| trichostatin A | affects cotreatment, increases expression | 2 |
| entinostat | increases expression, affects cotreatment | 2 |
| bisphenol S | decreases expression, increases expression | 2 |
| bisphenol AF | decreases expression, increases expression | 2 |
| Panobinostat | increases expression, affects cotreatment | 2 |
| Arsenic | affects methylation, affects cotreatment, decreases expression, increases abundance | 2 |
| Cadmium | decreases expression, increases abundance, increases expression | 2 |
| Doxorubicin | affects response to substance, decreases expression | 2 |
| Estradiol | affects cotreatment, decreases expression, increases expression | 2 |
| Fluorouracil | affects response to substance, affects reaction, decreases expression | 2 |
| Phenylmercuric Acetate | affects cotreatment, increases expression | 2 |
| Tobacco Smoke Pollution | affects expression, decreases expression | 2 |
| FR900359 | increases phosphorylation | 1 |
| bisphenol F | increases expression | 1 |
| sotorasib | decreases expression, affects cotreatment | 1 |
| triphenyl phosphate | affects expression | 1 |
| terbufos | increases methylation | 1 |
| arsenite | affects binding, decreases reaction | 1 |
| perfluorooctanoic acid | increases expression | 1 |
| manganese chloride | increases abundance, affects cotreatment, decreases expression | 1 |
| mercuric bromide | affects cotreatment, increases expression | 1 |
| 1,2-bis(2-aminophenoxy)ethane N,N,N’,N’-tetraacetic acid acetoxymethyl ester | affects cotreatment, decreases reaction, increases response to substance | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| corosolic acid | increases expression | 1 |
Cellosaurus cell lines
8 cell lines: 4 transformed cell line, 2 cancer cell line, 1 finite cell line, 1 induced pluripotent stem cell
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_4T65 | GM24239 | Transformed cell line | Male |
| CVCL_4T72 | GM24391 | Transformed cell line | Female |
| CVCL_A9YZ | NCC-TGCT1-C1 | Cancer cell line | Female |
| CVCL_AZ48 | GM24234 | Transformed cell line | Female |
| CVCL_AZ50 | GM24343 | Transformed cell line | Male |
| CVCL_B0IE | GM28234 | Finite cell line | Female |
| CVCL_E0AQ | Ubigene HeLa COL6A3 KO | Cancer cell line | Female |
| CVCL_F1AE | GM29847 | Induced pluripotent stem cell | Female |
Clinical trials (associated diseases)
262 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00374465 | PHASE4 | UNKNOWN | Therapy With Verapamil or Carvedilol in Chronic Heart Failure |
| NCT01293903 | PHASE4 | COMPLETED | Study of Qiliqiangxin Capsule to Treat Dilated Cardiomyopathy |
| NCT01557140 | PHASE4 | COMPLETED | A Randomized Trial of Carvedilol in Chronic Chagas Cardiomyopathy |
| NCT01917149 | PHASE4 | COMPLETED | Supramaximal Titrated Inhibition of RAAS in Dilated Cardiomyopathy |
| NCT02115581 | PHASE4 | COMPLETED | Coenzyme Q10 Supplementation in Children With Idiopathic Dilated Cardiomyopathy |
| NCT06236022 | PHASE4 | RECRUITING | The Effects of Sirolimus in Patients With Dilated Cardiomyopathy Infected With Kaposi Sarcoma-associated Virus |
| NCT00120055 | PHASE4 | COMPLETED | Association Between Systemic Exposure of Atorvastatin and Metabolites and Atorvastatin-induced Myotoxicity |
| NCT03633565 | PHASE4 | UNKNOWN | Comparative Study of Strategies for Management of Duchenne Myopathy (DM) |
| NCT05657860 | PHASE4 | COMPLETED | Guanfacine Extended Release for the Reduction of Aggression and Self-injurious Behavior Associated With Prader-Willi Syndrome |
| NCT05744479 | PHASE4 | RECRUITING | Metformin for Antipsychotic-induced Weight Gain in Adults With Intellectual Disability |
| NCT06107829 | PHASE4 | WITHDRAWN | Valbenazine Treatment of Tardive Dyskinesia in Adults With Intellectual/Developmental Disabilities |
| NCT06997198 | PHASE4 | NOT_YET_RECRUITING | Deutetrabenazine Treatment for Tardive Dyskinesia in Intellectual/Developmental Disabilities |
| NCT00333827 | PHASE3 | COMPLETED | Cell Therapy In Dilated Cardiomyopathy |
| NCT00505154 | PHASE3 | COMPLETED | Effect of Rosuvastatin on Left Ventricular Remodeling |
| NCT01223703 | PHASE3 | COMPLETED | PUFAs and Left Ventricular Function in Heart Failure |
| NCT01583114 | PHASE3 | TERMINATED | PREclinical Mutation CARriers From Families With DIlated Cardiomyopathy and ACE Inhibitors |
| NCT01914081 | PHASE3 | UNKNOWN | Resveratrol: A Potential Anti- Remodeling Agent in Heart Failure, From Bench to Bedside |
| NCT02989181 | PHASE3 | UNKNOWN | Continues Positive Airway Pressure Treatment for Patients With Dilated Cardiomyopathy and Obstructive Sleep Apnea |
| NCT03439514 | PHASE3 | TERMINATED | A Study of ARRY-371797 (PF-07265803) in Patients With Symptomatic Dilated Cardiomyopathy Due to a Lamin A/C Gene Mutation |
| NCT05237323 | PHASE3 | COMPLETED | Micophenolate Mofetil Versus Azathioprine in Myocarditis |
| NCT05849766 | PHASE3 | COMPLETED | Effect of Dapagliflozin on Cardiac Structure, Function and Secondary Mitral Regurgitation in Patients with Left Ventricle Dysfunction |
| NCT06250257 | PHASE3 | RECRUITING | Bromocriptine in Dilated Cardiomyopathy Among Women of Reproductive Age |
| NCT03783923 | PHASE3 | TERMINATED | A Study of Deflazacort (Emflaza®) in Participants With Limb-Girdle Muscular Dystrophy 2I (LGMD2I) |
| NCT06246513 | PHASE3 | ACTIVE_NOT_RECRUITING | A Trial to Learn More About an Experimental Gene Therapy Called Bidridistrogene Xeboparvovec (SRP-9003) as a Possible Treatment for Limb Girdle Muscular Dystrophy 2E/R4 |
| NCT01225614 | PHASE3 | UNKNOWN | Efficacy and Tolerance of Early Launching of Nocturnal Non Invasive |
| NCT03414970 | PHASE3 | ACTIVE_NOT_RECRUITING | Hypofractionated Radiation Therapy After Mastectomy in Preventing Recurrence in Patients With Stage IIa-IIIa Breast Cancer |
| NCT01438788 | PHASE2 | COMPLETED | Low Protein Diet in Patients With Collagen VI Related Myopathies |
| NCT00629018 | PHASE2 | COMPLETED | Safety and Efficacy Study of Stem Cell Transplantation to Treat Dilated Cardiomyopathy |
| NCT00629096 | PHASE2 | COMPLETED | Intracoronary Infusion of Autologous Bone Marrow Cells for Treatment of Idiopathic Dilated Cardiomyopathy |
| NCT00765518 | PHASE2 | COMPLETED | Use of Ixmyelocel-T (Formerly Cardiac Repair Cell [CRC] Treatment) in Patients With Heart Failure Due to Dilated Cardiomyopathy (IMPACT-DCM) |
| NCT00847964 | PHASE2 | COMPLETED | Safety and Feasibility of Algisyl-LVR™ as a Method of Left Ventricular Restoration in Patients With DCM Undergoing Open-heart Surgery |
| NCT01020968 | PHASE2 | COMPLETED | Use of Ixmyelocel-T (Formerly Catheter-based Cardiac Repair Cell [CRC]) Treatment in Patients With Heart Failure Due to Dilated Cardiomyopathy |
| NCT01302171 | PHASE2 | COMPLETED | Bone Marrow Derived Adult Stem Cells for Dilated Cardiomyopathy |
| NCT01350310 | PHASE2 | COMPLETED | Safety and Efficacy Study of Intramyocardial Stem Cell Therapy in Patients With Dilated Cardiomyopathy |
| NCT02133911 | PHASE2 | COMPLETED | A Pilot Trial of Ranolazine to Treat Patients With Dilated Cardiomyopathy |
| NCT03071653 | PHASE2 | SUSPENDED | Left Cardiac Sympathetic Denervation for Cardiomyopathy Feasibility Pilot Study |
| NCT03572660 | PHASE2 | ACTIVE_NOT_RECRUITING | Use of Bone Marrow Derived Stem Cell and G-CSF With Circulatory Assistance in the Treatment of DCM |
| NCT03775070 | PHASE2 | COMPLETED | Simvastatin Therapy in Patients With Dilated Cardiomyopathy. |
| NCT04405804 | PHASE2 | UNKNOWN | Early Administration of Ivabradine in Children With Heart Failure |
| NCT05410873 | PHASE2 | COMPLETED | Examining the Effects of Mitochondrial Oxidative Stress in DCM |
Related Atlas pages
- Associated diseases: Bethlem myopathy 1A, Ullrich congenital muscular dystrophy 1A, dystonia 27, Bethlem myopathy, Ullrich congenital muscular dystrophy, Ullrich congenital muscular dystrophy 1C, collagen 6-related myopathy
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): Bethlem myopathy, Bethlem myopathy 1A, Bethlem myopathy 1C, collagen 6-related myopathy, congenital contractures, congenital myopathy, dystonia 27, limb-girdle muscular dystrophy, muscle tissue disorder, muscular dystrophy, myopathy, neuronopathy, distal hereditary motor, autosomal recessive, spinocerebellar ataxia type 13, Ullrich congenital muscular dystrophy, Ullrich congenital muscular dystrophy 1A, Ullrich congenital muscular dystrophy 1C