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. Involved in ossification. Predicted to be part of collagen type V trimer. 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
Alliance Genes
More Info more info ...
Candidate Gene For: Vetf6
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2947,448,741 - 47,598,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl947,448,736 - 47,598,154 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx955,973,694 - 56,128,855 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0961,096,497 - 61,251,656 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0959,392,512 - 59,547,667 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0952,091,088 - 52,238,735 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0951,757,496 - 51,906,270 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4944,374,113 - 44,525,086 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1944,376,901 - 44,388,758 (-)NCBI
Celera945,135,653 - 45,279,153 (-)NCBICelera
Cytogenetic Map9q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-diaminotoluene  (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)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,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)
oxaliplatin  (EXP)
ozone  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
pentane-2,3-dione  (EXP)
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)
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
mRatBN7.2947,448,741 - 47,598,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl947,448,736 - 47,598,154 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx955,973,694 - 56,128,855 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0961,096,497 - 61,251,656 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0959,392,512 - 59,547,667 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0952,091,088 - 52,238,735 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0951,757,496 - 51,906,270 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4944,374,113 - 44,525,086 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1944,376,901 - 44,388,758 (-)NCBI
Celera945,135,653 - 45,279,153 (-)NCBICelera
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 (-)EnsemblGRCh38hg38GRCh38
GRCh372189,896,624 - 190,044,487 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362189,604,886 - 189,752,850 (-)NCBINCBI36Build 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 Ensembl
GRCm38145,374,331 - 45,503,282 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl145,374,321 - 45,503,282 (-)EnsemblGRCm38mm10GRCm38
MGSCv37145,431,176 - 45,560,127 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)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
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 (-)Ensemblpanpan1.1panPan2
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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03630,769,002 - 30,921,527 (-)NCBIROS_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_1.0
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 (+)EnsemblSpeTri2.0SpeTri2.0 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 (-)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
(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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248991,035,797 - 1,175,394 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col5a2
1117 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92043051965430519Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92207120067071200Rat
1598823Memor16Memory QTL 161.9exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)92213332249968732Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92375402458157242Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92375402461381613Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)92746863972468639Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93253550577535505Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93253550577535505Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)93696235977814038Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
6903941Pur31Proteinuria QTL 310.036urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94019418885194188Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94019418885194188Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94249534379271511Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat

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
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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 44 29 18 29 7 10 73 34 34 11 7
Low 13 12 1 12 1 1 1 1 7 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005073   ⟹   ENSRNOP00000005073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl947,449,892 - 47,598,135 (-)Ensembl
Rnor_6.0 Ensembl952,092,511 - 52,238,564 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099326   ⟹   ENSRNOP00000086427
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl947,448,737 - 47,598,133 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114323   ⟹   ENSRNOP00000093325
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl947,448,736 - 47,598,154 (-)Ensembl
RefSeq Acc Id: NM_001399195   ⟹   NP_001386124
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000005073   ⟸   ENSRNOT00000005073
RefSeq Acc Id: ENSRNOP00000093325   ⟸   ENSRNOT00000114323
RefSeq Acc Id: ENSRNOP00000086427   ⟸   ENSRNOT00000099326
RefSeq Acc Id: NP_001386124   ⟸   NM_001399195
- Peptide Label: precursor
- UniProtKB: A0A8I6GEX8 (UniProtKB/TrEMBL),   A6INT3 (UniProtKB/TrEMBL)
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 ENSRNOT00000005073.8 UniProtKB/TrEMBL
  ENSRNOT00000099326 ENTREZGENE
  ENSRNOT00000099326.1 UniProtKB/TrEMBL
  ENSRNOT00000114323.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.1000 UniProtKB/TrEMBL
  6.20.200.20 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  VWF_C UniProtKB/TrEMBL
KEGG Report rno:85250 UniProtKB/TrEMBL
NCBI Gene 85250 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(IV) CHAIN UniProtKB/TrEMBL
  COLLAGEN ALPHA-2(V) CHAIN 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
  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