Col5a2 (collagen type V alpha 2 chain) - Rat Genome Database

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Gene: Col5a2 (collagen type V alpha 2 chain) Rattus norvegicus
Analyze
Symbol: Col5a2
Name: collagen type V alpha 2 chain
RGD ID: 70921
Description: Predicted to enable SMAD binding activity. Predicted to be an extracellular matrix structural constituent conferring tensile strength. Involved in ossification. Predicted to be located in extracellular region. Predicted to be part of collagen type V trimer. Predicted to be active in extracellular matrix. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome and Ehlers-Danlos syndrome classic type 2. Orthologous to human COL5A2 (collagen type V alpha 2 chain); PARTICIPATES IN syndecan signaling pathway; cell-extracellular matrix signaling pathway; Entamoebiasis pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: collagen alpha-2(V) chain; collagen type V alpha 2; collagen, type V, alpha 2; procollagen, type V, alpha 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Vetf6
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8954,940,768 - 55,090,151 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl954,940,764 - 55,090,150 (-)EnsemblGRCr8
mRatBN7.2947,448,741 - 47,598,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl947,448,736 - 47,598,154 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx955,973,694 - 56,128,855 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0961,096,497 - 61,251,656 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0959,392,512 - 59,547,667 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0952,091,088 - 52,238,735 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)Ensemblrn6Rnor6.0
Rnor_5.0951,757,496 - 51,906,270 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4944,374,113 - 44,525,086 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera945,135,653 - 45,279,153 (-)NCBICelera
RGSC_v3.1944,376,901 - 44,388,758 (-)NCBI
Cytogenetic Map9q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-diaminotoluene  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-butoxyethanol  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-methylcholanthrene  (ISO)
3-Nitrobenzanthrone  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aconitine  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
alachlor  (EXP)
aldehydo-D-glucose  (ISO)
alendronic acid  (EXP)
Alisol B  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
Azoxymethane  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
bisphenol F  (ISO)
bleomycin A2  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
cannabidiol  (ISO)
cantharidin  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
choline  (ISO)
chromium atom  (ISO)
cisplatin  (ISO)
clothianidin  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
Cuprizon  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-glucose  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
diquat  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fructose  (ISO)
fulvestrant  (ISO)
furan  (EXP)
glucose  (ISO)
glyphosate  (EXP)
hydroquinone  (ISO)
isoprenaline  (ISO)
isotretinoin  (ISO)
L-methionine  (ISO)
Lasiocarpine  (ISO)
lead diacetate  (EXP)
manganese(II) chloride  (EXP)
menadione  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
naphthalene  (ISO)
nickel sulfate  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentane-2,3-dione  (EXP)
perfluorohexanesulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
raloxifene  (EXP)
rotenone  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sulindac  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP,ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Exploring the Immune Infiltration Landscape and M2 Macrophage-Related Biomarkers of Proliferative Diabetic Retinopathy. Meng Z, etal., Front Endocrinol (Lausanne). 2022 May 27;13:841813. doi: 10.3389/fendo.2022.841813. eCollection 2022.
4. Gene Data Set MGD Curation, June 12, 2002
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Mutations of the alpha2(V) chain of type V collagen impair matrix assembly and produce ehlers-danlos syndrome type I. Michalickova K, etal., Hum Mol Genet 1998 Feb;7(2):249-55.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Structural abnormalities of the cornea and lid resulting from collagen V mutations. Segev F, etal., Invest Ophthalmol Vis Sci. 2006 Feb;47(2):565-73.
15. Collagen mRNA expression during tissue development: the temporospacial order coordinates bone morphogenesis with collagen fiber formation. Wurtz T, etal., Matrix Biol 1998 Oct;17(5):349-60.
16. Identification of the shared gene signatures between pulmonary fibrosis and pulmonary hypertension using bioinformatics analysis. Zhao H, etal., Front Immunol. 2023 Sep 4;14:1197752. doi: 10.3389/fimmu.2023.1197752. eCollection 2023.
Additional References at PubMed
PMID:7704020   PMID:9783710   PMID:14559231   PMID:15199158   PMID:20548288   PMID:21713001   PMID:22206666   PMID:23154389   PMID:23658023   PMID:24006456   PMID:27068509   PMID:27559042  


Genomics

Comparative Map Data
Col5a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8954,940,768 - 55,090,151 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl954,940,764 - 55,090,150 (-)EnsemblGRCr8
mRatBN7.2947,448,741 - 47,598,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl947,448,736 - 47,598,154 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx955,973,694 - 56,128,855 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0961,096,497 - 61,251,656 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0959,392,512 - 59,547,667 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0952,091,088 - 52,238,735 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)Ensemblrn6Rnor6.0
Rnor_5.0951,757,496 - 51,906,270 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4944,374,113 - 44,525,086 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera945,135,653 - 45,279,153 (-)NCBICelera
RGSC_v3.1944,376,901 - 44,388,758 (-)NCBI
Cytogenetic Map9q22NCBI
COL5A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382189,031,898 - 189,441,111 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2189,031,898 - 189,225,312 (-)Ensemblhg38GRCh38
GRCh372189,896,624 - 190,044,487 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362189,604,886 - 189,752,850 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342189,722,746 - 189,869,994NCBI
Celera2183,491,426 - 183,639,662 (-)NCBICelera
Cytogenetic Map2q32.2NCBI
HuRef2181,756,174 - 181,904,275 (-)NCBIHuRef
CHM1_12189,902,544 - 190,050,507 (-)NCBICHM1_1
T2T-CHM13v2.02189,520,729 - 189,930,392 (-)NCBIT2T-CHM13v2.0
Col5a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39145,413,491 - 45,542,442 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl145,413,481 - 45,542,442 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38145,374,331 - 45,503,282 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl145,374,321 - 45,503,282 (-)Ensemblmm10GRCm38
MGSCv37145,431,176 - 45,560,127 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36145,318,877 - 45,447,828 (-)NCBIMGSCv36mm8
Celera145,675,438 - 45,811,971 (-)NCBICelera
Cytogenetic Map1C1.1NCBI
cM Map123.69NCBI
Col5a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554039,562,401 - 9,703,828 (+)Ensembl
ChiLan1.0NW_0049554039,562,401 - 9,703,828 (+)NCBIChiLan1.0ChiLan1.0
COL5A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21391,725,282 - 92,133,749 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B91,740,264 - 91,887,460 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B76,339,756 - 76,487,133 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B194,259,316 - 194,407,237 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B194,259,316 - 194,407,237 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3630,444,268 - 30,596,870 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03630,769,002 - 30,921,527 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3630,770,381 - 30,921,684 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13630,829,323 - 30,981,791 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03630,765,542 - 30,917,922 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03630,934,376 - 31,087,519 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Col5a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303147,964,999 - 148,098,596 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365068,822,517 - 8,870,836 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365068,739,475 - 8,873,073 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL5A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1593,611,856 - 93,800,191 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11593,611,856 - 93,981,131 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215104,122,882 - 104,272,687 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COL5A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11074,509,704 - 74,659,251 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1074,507,772 - 74,659,366 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666040124,813,969 - 124,963,385 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col5a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248991,035,964 - 1,174,844 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248991,035,797 - 1,175,394 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Col5a2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v14121,247,607 - 121,383,864 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Col5a2
1172 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:16
Count of miRNA genes:16
Interacting mature miRNAs:16
Transcripts:ENSRNOT00000005073
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)94002992585029925Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)93125043268875676Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94445825699506504Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)92956766474567664Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)94445825685262605Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92956766483835942Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)94172029586720295Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)93125043265651574Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1581517Bp284Blood pressure QTL 284arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)93922018684220186Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)94002992585029925Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)95450650499506504Rat
1598823Memor16Memory QTL 161.9exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)93145606157460683Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93496059079960590Rat

Markers in Region
D10Mgh26  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2947,584,747 - 47,584,926 (+)MAPPERmRatBN7.2
Rnor_6.0952,225,574 - 52,225,752NCBIRnor6.0
Rnor_5.0951,893,386 - 51,893,564UniSTSRnor5.0
RGSC_v3.4944,511,636 - 44,511,814UniSTSRGSC3.4
RGSC_v3.11419,720,181 - 19,720,340RGD
Cytogenetic Map9q22UniSTS
RH138496  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2947,586,997 - 47,587,180 (+)MAPPERmRatBN7.2
Rnor_6.0952,227,824 - 52,228,006NCBIRnor6.0
Rnor_5.0951,895,636 - 51,895,818UniSTSRnor5.0
RGSC_v3.4944,513,885 - 44,514,067UniSTSRGSC3.4
Celera945,268,325 - 45,268,507UniSTS
Cytogenetic Map9q22UniSTS
AW558340  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2947,450,043 - 47,450,180 (+)MAPPERmRatBN7.2
Rnor_6.0952,092,396 - 52,092,532NCBIRnor6.0
Rnor_5.0951,758,804 - 51,758,940UniSTSRnor5.0
RGSC_v3.4944,375,421 - 44,375,557UniSTSRGSC3.4
Celera945,136,961 - 45,137,097UniSTS
Cytogenetic Map9q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 160 91 90 59 33 59 6 297 133 11 139 81 92 31 13 13

Sequence


Ensembl Acc Id: ENSRNOT00000005073   ⟹   ENSRNOP00000005073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl954,940,764 - 55,090,150 (-)Ensembl
mRatBN7.2 Ensembl947,449,892 - 47,598,135 (-)Ensembl
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000099326   ⟹   ENSRNOP00000086427
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl954,940,764 - 55,090,150 (-)Ensembl
mRatBN7.2 Ensembl947,448,737 - 47,598,133 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114323   ⟹   ENSRNOP00000093325
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl954,940,764 - 55,090,150 (-)Ensembl
mRatBN7.2 Ensembl947,448,736 - 47,598,154 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000129308   ⟹   ENSRNOP00000106883
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl954,940,764 - 55,090,150 (-)Ensembl
RefSeq Acc Id: NM_001399195   ⟹   NP_001386124
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8954,940,768 - 55,090,151 (-)NCBI
mRatBN7.2947,448,741 - 47,598,134 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386124 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA12180 (Get FASTA)   NCBI Sequence Viewer  
  EDL99127 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000005073.8
  ENSRNOP00000086427
  ENSRNOP00000086427.1
  ENSRNOP00000093325.1
  ENSRNOP00000106883.1
Ensembl Acc Id: ENSRNOP00000005073   ⟸   ENSRNOT00000005073
Ensembl Acc Id: ENSRNOP00000093325   ⟸   ENSRNOT00000114323
Ensembl Acc Id: ENSRNOP00000086427   ⟸   ENSRNOT00000099326
RefSeq Acc Id: NP_001386124   ⟸   NM_001399195
- Peptide Label: precursor
- UniProtKB: A0A8I6GEX8 (UniProtKB/TrEMBL),   A6INT3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000106883   ⟸   ENSRNOT00000129308
Protein Domains
Fibrillar collagen NC1   VWFC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LQ00-F1-model_v2 AlphaFold F1LQ00 1-1494 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70921 AgrOrtholog
BioCyc Gene G2FUF-27639 BioCyc
Ensembl Genes ENSRNOG00000003736 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005073.9 UniProtKB/TrEMBL
  ENSRNOT00000099326 ENTREZGENE
  ENSRNOT00000099326.2 UniProtKB/TrEMBL
  ENSRNOT00000114323.2 UniProtKB/TrEMBL
  ENSRNOT00000129308.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.1000 UniProtKB/TrEMBL
  6.20.200.20 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  Collagen_Structural_Proteins UniProtKB/TrEMBL
  Collagen_superfamily UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  VWF_C UniProtKB/TrEMBL
NCBI Gene 85250 ENTREZGENE
PANTHER COL_CUTICLE_N DOMAIN-CONTAINING PROTEIN-RELATED UniProtKB/TrEMBL
  COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(XXIII) CHAIN-LIKE ISOFORM X2 UniProtKB/TrEMBL
  SI:CH211-266K2.1 UniProtKB/TrEMBL
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
PhenoGen Col5a2 PhenoGen
PROSITE NC1_FIB UniProtKB/TrEMBL
  VWFC_1 UniProtKB/TrEMBL
  VWFC_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003736 RatGTEx
SMART COLFI UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
Superfamily-SCOP FnI-like domain UniProtKB/TrEMBL
UniProt A0A8I6AII1_RAT UniProtKB/TrEMBL
  A0A8I6GEX8 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LY08_RAT UniProtKB/TrEMBL
  A6INT3 ENTREZGENE, UniProtKB/TrEMBL
  F1LQ00_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-01 Col5a2  collagen type V alpha 2 chain  Col5a2  collagen, type V, alpha 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-25 Col5a2  collagen, type V, alpha 2  Col5a2  procollagen, type V, alpha 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Col5a2  procollagen, type V, alpha 2    collagen, type V, alpha 2  Name updated 1299863 APPROVED
2002-07-09 Col5a2  collagen, type V, alpha 2      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in peripheral bone cells of the maxilla and premaxilla 70694