Gene Gene information from NCBI Gene database.
Entrez ID 1285
Gene name Collagen type IV alpha 3 chain
Gene symbol COL4A3
Synonyms (NCBI Gene)
ATS2ATS3ATS3AATS3BBFH2
Chromosome 2
Chromosome location 2q36.3
Summary Type IV collagen, the major structural component of basement membranes, is a multimeric protein composed of 3 alpha subunits. These subunits are encoded by 6 different genes, alpha 1 through alpha 6, each of which can form a triple helix structure with 2
miRNA miRNA information provided by mirtarbase database.
61
miRTarBase ID miRNA Experiments Reference
MIRT047553 hsa-miR-10a-5p CLASH 23622248
MIRT527454 hsa-miR-548ac PAR-CLIP 22012620
MIRT527453 hsa-miR-548bb-3p PAR-CLIP 22012620
MIRT527452 hsa-miR-548d-3p PAR-CLIP 22012620
MIRT527451 hsa-miR-548h-3p PAR-CLIP 22012620
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
ZEB1 Unknown 22199242
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
34
GO ID Ontology Definition Evidence Reference
GO:0005178 Function Integrin binding IDA 12682293
GO:0005178 Function Integrin binding TAS 10766752
GO:0005198 Function Structural molecule activity NAS 3025878
GO:0005201 Function Extracellular matrix structural constituent IEA
GO:0005515 Function Protein binding IPI 10212244, 12682293
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
120070 2204 ENSG00000169031
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q01955
Protein name Collagen alpha-3(IV) chain (Goodpasture antigen) [Cleaved into: Tumstatin]
Protein function Type IV collagen is the major structural component of glomerular basement membranes (GBM), forming a 'chicken-wire' meshwork together with laminins, proteoglycans and entactin/nidogen.; Tumstatin, a cleavage fragment corresponding to t
PDB 5NB0 , 6WKU
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01391 Collagen 41 104 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 97 162 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 169 223 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 282 344 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 351 412 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 386 444 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 413 478 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 482 546 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 588 648 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 699 749 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 747 809 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 788 849 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 847 905 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 892 948 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 950 1009 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 997 1060 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1061 1122 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1119 1178 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1176 1235 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1292 1352 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1379 1441 Collagen triple helix repeat (20 copies) Repeat
PF01413 C4 1446 1553 C-terminal tandem repeated domain in type 4 procollagen Domain
PF01413 C4 1556 1667 C-terminal tandem repeated domain in type 4 procollagen Domain
Tissue specificity TISSUE SPECIFICITY: Alpha 3 and alpha 4 type IV collagens are colocalized and present in kidney, eye, basement membranes of lens capsule, cochlea, lung, skeletal muscle, aorta, synaptic fibers, fetal kidney and fetal lung. PubMed:8083201 reports similar l
Sequence
MSARTAPRPQVLLLPLLLVLLAAAPAASKGCVCKDKGQCFCDGAKGEKGEKGFPGPPGSP
GQKGFTGPEGLPGPQGPKGFPGLPGLTGSKGVRGIS
GLPGFSGSPGLPGTPGNTGPYGLV
GVPGCSGSKGEQGFPGLPGTLGYPGIPGAAGLKGQKGAPAKE
EDIELDAKGDPGLPGAPG
PQGLPGPPGFPGPVGPPGPPGFFGFPGAMGPRGPKGHMGERVI
GHKGERGVKGLTGPPGP
PGTVIVTLTGPDNRTDLKGEKGDKGAMGEPGPPGPSGLPGESYGSEKGAPGDPGLQGKPG
KDGVPGFPGSEGVKGNRGFPGLMGEDGIKGQKGDIGPPGFRGPT
EYYDTYQEKGDEGTPG
PPGPRGARGPQGPSGPPGVPGSPGS
SRPGLRGAPGWPGLKGSKGERGRPGKDAMGTPGSP
GCAGSPGLPGSPGPPGPPGDIVFR
KGPPGDHGLPGYLGSPGIPGVDGPKGEPGLLCTQ
CP
YIPGPPGLPGLPGLHGVKGIPGRQGAAGLKGSPGSPGNTGLPGFPGFPGAQGDPGLKGEK
GETLQP
EGQVGVPGDPGLRGQPGRKGLDGIPGTPGVKGLPGPKGELALSGEKGDQGPPGD
PGSPGSPGPAGPAGPPGYGPQGEPGLQGTQGVPGAPGPPGEAGPRGEL
SVSTPVPGPPGP
PGPPGHPGPQGPPGIPGSLGKCGDPGLPGPDGEPGIPGIGFPGPPGPKGDQGFPGTKGSL
GCPGKMGEPGLPGKPGLPGAKGEPAV
AMPGGPGTPGFPGERGNSGEHGEIGLPGLPGLPG
TPGNEGLDGPRGDPGQPGPPGEQGPPGRCIEGPRGAQGLPGLNGLKGQQGRRGKTGPKGD
PGIPGLDRSGFPGETGSPGIPGHQGEMGPLGQRGYPGNPGILGPPGEDGVIGMMGFPGAI
GPPGP
PGNPGTPGQRGSPGIPGVKGQRGTPGAKGEQGDKGNPGPSEIS
HVIGDKGEPGLK
GFAGNPGEKGNRGVPGMPGLKGLKGLPGPAGPPGPR
GDLGSTGNPGEPGLRGIPGSMGNM
GMPGSKGKRGTLGFPGRAGRPGLPGIHGLQGDKGEPGYSE
GTRPGPPGPTGDPGLPGDMG
KKGEMGQPGPPGHLGPAGPEGAPGSPGSPGLPGKPGPH
GDLGFKGIKGLLGPPGIRGPPG
LPGFPGSPGPMGIRGDQGRDGIPGPAGEKGETGLLRAPPGPRGNPGAQGAKGDRGAPGFP
GLPGRKGAMGDAGPRGPTGIEGFPGPPGLPGAIIP
GQTGNRGPPGSRGSPGAPGPPGPPG
SHVIGIKGDKGSMGHPGPKGPPGTAGDMGPPGRLGAPGTPGLPGPRGDPGFQGFPGVKGE
KGNPGFLGSIGPPGPIGPKGPPGVRGDPGTLK
IISLPGSPGPPGTPGEPGMQGEPGPPGP
PGNLGPCGPRGKPGKDGKPGTPGPAGEKGNKGSKGEPGPAGSDGLPGLKGKRGDSGSPAT
W
TTRGFVFTRHSQTTAIPSCPEGTVPLYSGFSFLFVQGNQRAHGQDLGTLGSCLQRFTTM
PFLFCNVNDVCNFASRNDYSYWLSTPALMPMNMAPITGRALEPYISRCTVCEG
PAIAIAV
HSQTTDIPPCPHGWISLWKGFSFIMFTSAGSEGTGQALASPGSCLEEFRASPFLECHGRG
TCNYYSNSYSFWLASLNPERMFRKPIPSTVKAGELEKIISRCQVCMK
KRH
Sequence length 1670
Interactions View interactions
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
62
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Alport syndrome Likely pathogenic; Pathogenic rs1414411811, rs1559899827, rs2125936534, rs1385106410, rs761358728, rs2106164697, rs2125932297, rs755109848, rs2071832975, rs1246102682, rs2125961933, rs1185847791, rs2125972390, rs1346132592, rs2125906801
View all (54 more)
RCV001826053
RCV004789553
RCV005614532
RCV001826180
RCV001831385
View all (65 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alport syndrome 3b, autosomal recessive Likely pathogenic; Pathogenic rs202001097, rs2125914087, rs761358728, rs2069929443, rs1574842143, rs2125961933, rs375290088, rs2125972772, rs2073715263, rs1346132592, rs2125906801, rs1167411352, rs757341933, rs2106283830, rs1430568143
View all (99 more)
RCV005023122
RCV005860226
RCV005014528
RCV005864615
RCV005023304
View all (110 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Autosomal dominant Alport syndrome Pathogenic; Likely pathogenic rs2106226493, rs1559899827, rs202001097, rs1350835100, rs1385106410, rs761358728, rs2125956727, rs2125924714, rs2125932350, rs2072046668, rs1183958961, rs2106236091, rs2125932297, rs2125924619, rs2071832975
View all (179 more)
RCV001353239
RCV001726512
RCV005023122
RCV002499782
RCV002499809
View all (198 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Autosomal recessive Alport syndrome Likely pathogenic; Pathogenic rs1350835100, rs1385106410, rs2106250807, rs1183958961, rs2106154439, rs2125932297, rs2125924619, rs2106284079, rs2106206598, rs1286895614, rs2106235905, rs375290088, rs2106151987, rs1240838887, rs2125981235
View all (197 more)
RCV002499782
RCV002499809
RCV001391122
RCV001535999
RCV001823234
View all (211 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ATROPHIC MACULAR DEGENERATION GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Atypical hemolytic-uremic syndrome Benign; Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Age related macular degeneration Age-related macular degeneration GWASCAT_DG 26691988
★☆☆☆☆
Found in Text Mining only
Alport Syndrome Alport Syndrome BEFREE 10200983, 10460935, 10499074, 10534397, 11044206, 11134255, 11572889, 11961012, 12203217, 14582039, 15954103, 16252232, 1686082, 17143627, 17726307
View all (40 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alport Syndrome Alport Syndrome CTD_human_DG 12631109
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alport Syndrome Alport Syndrome GENOMICS_ENGLAND_DG 24052634
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alport Syndrome Alport Syndrome CLINVAR_DG
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
ALPORT SYNDROME 2, AUTOSOMAL RECESSIVE Alport Syndrome CLINVAR_DG 11044206, 11134255, 12028435, 14582039, 15954103, 18436078, 22887978, 23297803, 23927549, 24033287, 24052634, 24633401, 24854265, 25307543, 25514610
View all (12 more)
★☆☆☆☆
Found in Text Mining only
ALPORT SYNDROME 2, AUTOSOMAL RECESSIVE Alport Syndrome UNIPROT_DG 11044206, 11134255
★☆☆☆☆
Found in Text Mining only
ALPORT SYNDROME 2, AUTOSOMAL RECESSIVE Alport Syndrome GENOMICS_ENGLAND_DG 24052634, 25381091, 9269635
★☆☆☆☆
Found in Text Mining only
ALPORT SYNDROME 3, AUTOSOMAL DOMINANT Alport Syndrome UNIPROT_DG 11044206, 11134255
★☆☆☆☆
Found in Text Mining only
ALPORT SYNDROME 3, AUTOSOMAL DOMINANT Alport Syndrome GENOMICS_ENGLAND_DG 24052634, 25381091, 9269635
★☆☆☆☆
Found in Text Mining only