Col5a1 (collagen type V alpha 1 chain) - Rat Genome Database

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Gene: Col5a1 (collagen type V alpha 1 chain) Ictidomys tridecemlineatus
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Symbol: Col5a1
Name: collagen type V alpha 1 chain
RGD ID: 12638037
Description: ENCODES a protein that exhibits extracellular matrix structural constituent (ortholog); heparin binding (ortholog); platelet-derived growth factor binding (ortholog); INVOLVED IN blood vessel development (ortholog); cell adhesion (ortholog); cell migration (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH Animal Mammary Neoplasms (ortholog); aortic aneurysm (ortholog); aortic valve disease 1 (ortholog); FOUND IN basement membrane (ortholog); collagen trimer (ortholog); collagen type V trimer (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: collagen alpha-1(V) chain
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947200,761,510 - 200,900,677 (+)NCBI
SpeTri2.0NW_0049366692,474,381 - 2,613,541 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
Col5a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947200,761,510 - 200,900,677 (+)NCBI
SpeTri2.0NW_0049366692,474,381 - 2,613,541 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL5A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9134,641,774 - 134,844,843 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl9134,641,803 - 134,844,843 (+)EnsemblGRCh38hg38GRCh38
GRCh389134,641,789 - 134,844,843 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379137,533,649 - 137,736,689 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369136,673,473 - 136,876,510 (+)NCBINCBI36hg18NCBI36
Build 349134,759,596 - 134,960,684NCBI
Celera9108,048,806 - 108,251,522 (+)NCBI
Cytogenetic Map9q34.3NCBI
HuRef9106,996,262 - 107,200,594 (+)NCBIHuRef
CHM1_19137,682,127 - 137,886,117 (+)NCBICHM1_1
Col5a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39227,776,393 - 27,929,522 (+)NCBIGRCm39mm39
GRCm39 Ensembl227,776,437 - 27,929,526 (+)Ensembl
GRCm38227,886,381 - 28,039,510 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl227,886,425 - 28,039,514 (+)EnsemblGRCm38mm10GRCm38
MGSCv37227,741,945 - 27,895,030 (+)NCBIGRCm37mm9NCBIm37
MGSCv36227,708,694 - 27,859,533 (+)NCBImm8
Celera227,589,197 - 27,742,307 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map219.38NCBI
Col5a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2311,208,429 - 11,356,715 (+)NCBI
Rnor_6.0 Ensembl36,430,201 - 6,578,882 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.036,430,180 - 6,581,010 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0311,788,675 - 11,937,880 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.436,826,169 - 6,971,054 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.136,826,468 - 6,971,354 (+)NCBI
Celera36,002,130 - 6,146,263 (+)NCBICelera
Cytogenetic Map3p12NCBI
Col5a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555133,533,614 - 3,658,161 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555133,533,612 - 3,660,605 (+)NCBIChiLan1.0ChiLan1.0
COL5A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19134,391,081 - 134,543,769 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9134,342,955 - 134,544,651 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09105,746,388 - 105,956,280 (+)NCBIMhudiblu_PPA_v0panPan3
COL5A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1950,706,852 - 50,856,691 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl950,770,277 - 50,854,728 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha949,989,837 - 50,140,047 (+)NCBI
ROS_Cfam_1.0951,583,512 - 51,733,920 (+)NCBI
UMICH_Zoey_3.1950,343,968 - 50,494,164 (+)NCBI
UNSW_CanFamBas_1.0950,687,121 - 50,838,052 (+)NCBI
UU_Cfam_GSD_1.0950,765,252 - 50,915,697 (+)NCBI
COL5A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1273,971,971 - 274,085,426 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11273,934,219 - 274,083,264 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21308,064,240 - 308,174,334 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL5A1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1123,301,643 - 3,507,300 (-)NCBI
ChlSab1.1 Ensembl123,301,175 - 3,459,607 (-)Ensembl
Col5a1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247602,593,923 - 2,713,772 (+)NCBI


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_005336948   ⟹   XP_005337005
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947200,761,511 - 200,900,677 (+)NCBI
SpeTri2.0NW_0049366692,474,381 - 2,613,541 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005336949   ⟹   XP_005337006
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947200,761,510 - 200,900,677 (+)NCBI
SpeTri2.0NW_0049366692,474,381 - 2,613,541 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005734187
RefSeq Status:
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947200,761,511 - 200,895,030 (+)NCBI
RefSeq Acc Id: XR_005734188
RefSeq Status:
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947200,761,511 - 200,895,030 (+)NCBI
Protein Sequences
Protein RefSeqs XP_005337005 (Get FASTA)   NCBI Sequence Viewer  
  XP_005337006 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005337006   ⟸   XM_005336949
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005337005   ⟸   XM_005336948
- Peptide Label: isoform X1
- Sequence:
Protein Domains
Fibrillar collagen NC1


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000023663 UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000018359 UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000025577 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  ConA-like_dom_sf UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
NCBI Gene Col5a1 ENTREZGENE
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
PROSITE NC1_FIB UniProtKB/TrEMBL
SMART COLFI UniProtKB/TrEMBL
  LamG UniProtKB/TrEMBL
  TSPN UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/TrEMBL
UniProt I3N1W3_ICTTR UniProtKB/TrEMBL