COL5A2 (collagen type V alpha 2 chain) - Rat Genome Database

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Gene: COL5A2 (collagen type V alpha 2 chain) Sus scrofa
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Symbol: COL5A2
Name: collagen type V alpha 2 chain
RGD ID: 13873129
Description: ENCODES a protein that exhibits extracellular matrix structural constituent (inferred); metal ion binding (inferred); SMAD binding (inferred); INVOLVED IN cellular response to amino acid stimulus (ortholog); ossification (ortholog); skeletal system development (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH aortic disease (ortholog); atrial heart septal defect (ortholog); connective tissue disease (ortholog); FOUND IN collagen trimer (inferred); collagen type V trimer (inferred)
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: collagen alpha-2(V) 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 Ensembl1593,611,856 - 93,981,110 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11593,611,856 - 93,981,131 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215104,122,882 - 104,272,687 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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
COL5A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1593,611,856 - 93,981,110 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11593,611,856 - 93,981,131 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215104,122,882 - 104,272,687 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COL5A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2189,031,898 - 189,225,312 (-)EnsemblGRCh38hg38GRCh38
GRCh382189,031,898 - 189,225,301 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372189,896,624 - 190,044,487 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362189,604,886 - 189,752,850 (-)NCBINCBI36hg18NCBI36
Build 342189,722,746 - 189,869,994NCBI
Celera2183,491,426 - 183,639,662 (-)NCBI
Cytogenetic Map2q32.2NCBI
HuRef2181,756,174 - 181,904,275 (-)NCBIHuRef
CHM1_12189,902,544 - 190,050,507 (-)NCBICHM1_1
Col5a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39145,413,491 - 45,542,442 (-)NCBIGRCm39mm39
GRCm39 Ensembl145,413,481 - 45,542,442 (-)Ensembl
GRCm38145,374,331 - 45,503,282 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl145,374,321 - 45,503,282 (-)EnsemblGRCm38mm10GRCm38
MGSCv37145,431,176 - 45,560,127 (-)NCBIGRCm37mm9NCBIm37
MGSCv36145,318,877 - 45,447,828 (-)NCBImm8
Celera145,675,438 - 45,811,971 (-)NCBICelera
Cytogenetic Map1C1.1NCBI
Col5a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2947,448,736 - 47,598,396 (-)NCBI
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0952,091,088 - 52,238,735 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0951,757,496 - 51,906,270 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4944,374,113 - 44,525,086 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1944,376,901 - 44,388,758 (-)NCBI
Celera945,135,653 - 45,279,153 (-)NCBICelera
Cytogenetic Map9q22NCBI
Col5a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554039,562,401 - 9,703,828 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554039,562,401 - 9,703,828 (+)NCBIChiLan1.0ChiLan1.0
COL5A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B194,259,316 - 194,407,237 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B194,259,316 - 194,407,237 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B76,339,756 - 76,487,133 (-)NCBIMhudiblu_PPA_v0panPan3
COL5A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13630,538,863 - 30,677,450 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3630,540,229 - 30,691,564 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3630,444,268 - 30,596,870 (-)NCBI
ROS_Cfam_1.03630,769,002 - 30,921,527 (-)NCBI
UMICH_Zoey_3.13630,829,323 - 30,981,791 (-)NCBI
UNSW_CanFamBas_1.03630,765,542 - 30,917,922 (-)NCBI
UU_Cfam_GSD_1.03630,934,376 - 31,087,519 (-)NCBI
Col5a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303147,964,999 - 148,098,596 (-)NCBI
SpeTri2.0NW_0049365068,739,475 - 8,873,073 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL5A2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11074,509,704 - 74,659,251 (-)NCBI
ChlSab1.1 Ensembl1074,507,772 - 74,659,366 (-)Ensembl
Vero_WHO_p1.0NW_023666040124,813,969 - 124,963,385 (+)NCBI
Col5a2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248991,035,797 - 1,175,394 (+)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 10 4 2 5 2 6 3 1
Low 1 17 2
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000017460   ⟹   ENSSSCP00000016990
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1593,611,856 - 93,981,110 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000043552   ⟹   ENSSSCP00000055229
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1593,611,914 - 93,758,831 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000044241   ⟹   ENSSSCP00000034882
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1593,611,856 - 93,981,110 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000048411   ⟹   ENSSSCP00000058381
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1593,611,914 - 93,700,942 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000070303   ⟹   ENSSSCP00000071052
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1593,611,856 - 93,981,110 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000091371   ⟹   ENSSSCP00000074038
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1593,611,914 - 93,755,659 (-)Ensembl
RefSeq Acc Id: NM_001105289   ⟹   NP_001098759
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11593,612,786 - 93,758,690 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021074694   ⟹   XP_020930353
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11593,611,856 - 93,981,131 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021074695   ⟹   XP_020930354
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11593,611,856 - 93,981,124 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001098759 (Get FASTA)   NCBI Sequence Viewer  
  XP_020930353 (Get FASTA)   NCBI Sequence Viewer  
  XP_020930354 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAC41715 (Get FASTA)   NCBI Sequence Viewer  
  BAD91584 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020930353   ⟸   XM_021074694
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020930354   ⟸   XM_021074695
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001098759   ⟸   NM_001105289
- Peptide Label: precursor
- UniProtKB: Q59IP2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000058381   ⟸   ENSSSCT00000048411
RefSeq Acc Id: ENSSSCP00000034882   ⟸   ENSSSCT00000044241
RefSeq Acc Id: ENSSSCP00000071052   ⟸   ENSSSCT00000070303
RefSeq Acc Id: ENSSSCP00000074038   ⟸   ENSSSCT00000091371
RefSeq Acc Id: ENSSSCP00000016990   ⟸   ENSSSCT00000017460
RefSeq Acc Id: ENSSSCP00000055229   ⟸   ENSSSCT00000043552
Protein Domains
Fibrillar collagen NC1   VWFC


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000016035 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000016990 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000034882 UniProtKB/TrEMBL
  ENSSSCP00000055229 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000058381 UniProtKB/TrEMBL
  ENSSSCP00000071052 UniProtKB/TrEMBL
  ENSSSCP00000074038 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000017460 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000043552 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000044241 UniProtKB/TrEMBL
  ENSSSCT00000048411 UniProtKB/TrEMBL
  ENSSSCT00000070303 UniProtKB/TrEMBL
  ENSSSCT00000091371 ENTREZGENE, UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  VWF_dom UniProtKB/TrEMBL
KEGG Report ssc:397532 UniProtKB/TrEMBL
NCBI Gene COL5A2 ENTREZGENE
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
PROSITE NC1_FIB UniProtKB/TrEMBL
  VWFC_1 UniProtKB/TrEMBL
  VWFC_2 UniProtKB/TrEMBL
SMART COLFI UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
UniProt A0A286ZTA8_PIG UniProtKB/TrEMBL
  A0A287BPM1_PIG UniProtKB/TrEMBL
  A0A480VXI4_PIG UniProtKB/TrEMBL
  A0A5G2RHX8_PIG UniProtKB/TrEMBL
  F1RXW0_PIG UniProtKB/TrEMBL
  Q59IP2 ENTREZGENE, UniProtKB/TrEMBL
  Q8HYS3_PIG UniProtKB/TrEMBL
UniProt Secondary A0A287BF88 UniProtKB/TrEMBL
VGNC ID VGNC:95981 ENTREZGENE