COL6A3 (collagen type VI alpha 3 chain) - Rat Genome Database
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Gene: COL6A3 (collagen type VI alpha 3 chain) Sus scrofa
Analyze
Symbol: COL6A3
Name: collagen type VI alpha 3 chain
RGD ID: 13866072
Description: ENCODES a protein that exhibits serine-type endopeptidase inhibitor activity (inferred); INVOLVED IN response to glucose (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH Ataxia (ortholog); Bethlem myopathy (ortholog); Bethlem Myopathy 1 (ortholog); FOUND IN collagen trimer (ortholog); extracellular matrix (ortholog); extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOW QUALITY PROTEIN: collagen alpha-3(VI) chain
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15137,011,433 - 137,103,709 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115137,011,549 - 137,103,687 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215151,450,581 - 151,542,424 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:17145712  


Genomics

Comparative Map Data
COL6A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15137,011,433 - 137,103,709 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115137,011,549 - 137,103,687 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215151,450,581 - 151,542,424 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COL6A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2237,324,003 - 237,414,375 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl2237,324,003 - 237,414,207 (-)EnsemblGRCh38hg38GRCh38
GRCh382237,324,018 - 237,434,822 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372238,232,661 - 238,322,807 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362237,897,401 - 237,987,559 (-)NCBINCBI36hg18NCBI36
Build 342238,014,661 - 238,104,820NCBI
Celera2231,946,425 - 232,036,576 (-)NCBI
Cytogenetic Map2q37.3NCBI
HuRef2230,024,688 - 230,114,910 (-)NCBIHuRef
CHM1_12238,238,749 - 238,328,955 (-)NCBICHM1_1
Col6a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39190,694,582 - 90,771,710 (-)NCBIGRCm39mm39
GRCm39 Ensembl190,693,645 - 90,771,693 (-)Ensembl
GRCm38190,766,860 - 90,844,001 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl190,765,923 - 90,843,971 (-)EnsemblGRCm38mm10GRCm38
MGSCv37192,663,435 - 92,740,514 (-)NCBIGRCm37mm9NCBIm37
MGSCv36192,597,264 - 92,674,343 (-)NCBImm8
MGSCv36191,192,168 - 91,253,776 (-)NCBImm8
Celera193,712,460 - 93,789,439 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map145.53NCBI
Col6a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2991,361,578 - 91,439,434 (-)NCBI
Rnor_6.0 Ensembl997,926,787 - 98,004,546 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0997,926,784 - 98,004,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0997,607,496 - 97,685,349 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4989,990,129 - 90,043,697 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1990,169,794 - 90,232,286 (-)NCBI
Celera988,906,089 - 88,983,949 (-)NCBICelera
Cytogenetic Map9q36NCBI
Col6a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555422,887,723 - 2,949,062 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555422,869,183 - 2,950,569 (+)NCBIChiLan1.0ChiLan1.0
COL6A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B243,407,786 - 243,497,700 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v02B124,554,478 - 124,644,482 (-)NCBIMhudiblu_PPA_v0panPan3
COL6A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2547,971,315 - 48,052,402 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12547,971,439 - 48,052,673 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Col6a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936525905,419 - 983,486 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL6A3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110123,326,337 - 123,418,836 (-)NCBI
ChlSab1.1 Ensembl10123,327,102 - 123,400,114 (-)Ensembl
Col6a3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248472,786,560 - 2,863,800 (-)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 9 4 4 2 3
Low 1 3 1 12 2 1
Below cutoff 11

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000028799   ⟹   ENSSSCP00000027868
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,011,436 - 137,103,310 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000039840   ⟹   ENSSSCP00000032535
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,037,706 - 137,103,316 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000047656   ⟹   ENSSSCP00000056925
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,011,433 - 137,103,684 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000049596   ⟹   ENSSSCP00000050165
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,041,806 - 137,103,684 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000050631   ⟹   ENSSSCP00000035489
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,011,436 - 137,103,310 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000057728   ⟹   ENSSSCP00000033457
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,041,806 - 137,103,684 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000059316   ⟹   ENSSSCP00000057413
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,011,434 - 137,103,709 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000064455   ⟹   ENSSSCP00000032707
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,011,435 - 137,103,653 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000066100   ⟹   ENSSSCP00000058388
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,011,433 - 137,103,304 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000081117   ⟹   ENSSSCP00000073381
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15137,041,806 - 137,103,684 (-)Ensembl
RefSeq Acc Id: XM_021075741   ⟹   XP_020931400
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115137,011,549 - 137,103,687 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020931400 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAE93252 (Get FASTA)   NCBI Sequence Viewer  
  BAE93253 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020931400   ⟸   XM_021075741
- Sequence:
RefSeq Acc Id: ENSSSCP00000032707   ⟸   ENSSSCT00000064455
RefSeq Acc Id: ENSSSCP00000032535   ⟸   ENSSSCT00000039840
RefSeq Acc Id: ENSSSCP00000050165   ⟸   ENSSSCT00000049596
RefSeq Acc Id: ENSSSCP00000035489   ⟸   ENSSSCT00000050631
RefSeq Acc Id: ENSSSCP00000057413   ⟸   ENSSSCT00000059316
RefSeq Acc Id: ENSSSCP00000073381   ⟸   ENSSSCT00000081117
RefSeq Acc Id: ENSSSCP00000058388   ⟸   ENSSSCT00000066100
RefSeq Acc Id: ENSSSCP00000027868   ⟸   ENSSSCT00000028799
RefSeq Acc Id: ENSSSCP00000056925   ⟸   ENSSSCT00000047656
RefSeq Acc Id: ENSSSCP00000033457   ⟸   ENSSSCT00000057728

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000027331 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000027868 UniProtKB/TrEMBL
  ENSSSCP00000032535 UniProtKB/TrEMBL
  ENSSSCP00000032707 UniProtKB/TrEMBL
  ENSSSCP00000033457 UniProtKB/TrEMBL
  ENSSSCP00000035489 UniProtKB/TrEMBL
  ENSSSCP00000050165 UniProtKB/TrEMBL
  ENSSSCP00000056925 UniProtKB/TrEMBL
  ENSSSCP00000057413 UniProtKB/TrEMBL
  ENSSSCP00000058388 UniProtKB/TrEMBL
  ENSSSCP00000073381 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000028799 UniProtKB/TrEMBL
  ENSSSCT00000039840 UniProtKB/TrEMBL
  ENSSSCT00000047656 UniProtKB/TrEMBL
  ENSSSCT00000049596 UniProtKB/TrEMBL
  ENSSSCT00000050631 UniProtKB/TrEMBL
  ENSSSCT00000057728 UniProtKB/TrEMBL
  ENSSSCT00000059316 UniProtKB/TrEMBL
  ENSSSCT00000064455 UniProtKB/TrEMBL
  ENSSSCT00000066100 UniProtKB/TrEMBL
  ENSSSCT00000081117 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
  4.10.410.10 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Kunitz_BPTI UniProtKB/TrEMBL
  Kunitz_BPTI_sf UniProtKB/TrEMBL
  Prtase_inh_Kunz-CS UniProtKB/TrEMBL
  vWA_collagen_alpha3-VI-like UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
NCBI Gene COL6A3 ENTREZGENE
Pfam Collagen UniProtKB/TrEMBL
  fn3 UniProtKB/TrEMBL
  Kunitz_BPTI UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
PRINTS BASICPTASE UniProtKB/TrEMBL
PROSITE BPTI_KUNITZ_1 UniProtKB/TrEMBL
  BPTI_KUNITZ_2 UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
  VWFA UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
  SM00131 UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
Superfamily-SCOP SSF49265 UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF57362 UniProtKB/TrEMBL
UniProt A0A286ZLV2_PIG UniProtKB/TrEMBL
  A0A286ZMC0_PIG UniProtKB/TrEMBL
  A0A286ZPQ1_PIG UniProtKB/TrEMBL
  A0A286ZVG7_PIG UniProtKB/TrEMBL
  A0A287B163_PIG UniProtKB/TrEMBL
  A0A287BL81_PIG UniProtKB/TrEMBL
  A0A287BLM4_PIG UniProtKB/TrEMBL
  A0A287BPF4_PIG UniProtKB/TrEMBL
  A0A5G2R8G7_PIG UniProtKB/TrEMBL
  I3LUR7_PIG UniProtKB/TrEMBL
  Q1T7A4_PIG UniProtKB/TrEMBL
  Q1T7A5_PIG UniProtKB/TrEMBL
VGNC ID VGNC:95982 ENTREZGENE