Col5a3 (collagen type V alpha 3 chain) - Rat Genome Database

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Gene: Col5a3 (collagen type V alpha 3 chain) Rattus norvegicus
Analyze
Symbol: Col5a3
Name: collagen type V alpha 3 chain
RGD ID: 70922
Description: Enables proteoglycan binding activity. Predicted to be involved in extracellular matrix organization. Predicted to act upstream of or within cell-matrix adhesion. Located in collagen-containing extracellular matrix. Orthologous to human COL5A3 (collagen type V alpha 3 chain); PARTICIPATES IN cell-extracellular matrix signaling pathway; Entamoebiasis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; 7,12-dimethyltetraphene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: collagen alpha-3(V) chain; collagen, type V, alpha 3; collagen, type V, alpha 4; procollagen type V alpha 3; procollagen, type V, alpha 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8827,580,768 - 27,626,002 (-)NCBIGRCr8
mRatBN7.2819,304,564 - 19,349,809 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl819,304,571 - 19,349,853 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx823,323,956 - 23,369,191 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0821,621,800 - 21,667,038 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0819,534,265 - 19,579,445 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0821,786,324 - 21,831,751 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl821,786,324 - 21,831,668 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0821,842,413 - 21,887,757 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4819,789,061 - 19,834,241 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1819,789,060 - 19,834,241 (-)NCBI
Celera820,699,885 - 20,745,065 (-)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-butoxyethanol  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
acetamide  (EXP)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[ghi]perylene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bleomycin A2  (ISO)
cadmium dichloride  (EXP)
cantharidin  (ISO)
carbon nanotube  (ISO)
carmustine  (EXP)
chlorpyrifos  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
Cuprizon  (EXP)
dexamethasone  (EXP)
diallyl trisulfide  (ISO)
dibenz[a,h]anthracene  (ISO)
diethylstilbestrol  (EXP)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
fenthion  (ISO)
fenvalerate  (EXP)
furan  (EXP,ISO)
gentamycin  (EXP)
lipopolysaccharide  (ISO)
methimazole  (EXP)
methotrexate  (EXP)
methyl methanesulfonate  (ISO)
mifepristone  (EXP)
N-methyl-N-nitrosourea  (EXP)
naphthalene  (ISO)
nitric oxide  (ISO)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
pentane-2,3-dione  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sotorasib  (ISO)
testosterone  (EXP)
tetrachloroethene  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
tioguanine  (EXP)
titanium dioxide  (ISO)
trametinib  (ISO)
triadimefon  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
tungsten  (ISO)
undecane  (EXP)
valproic acid  (ISO)

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

References - curated
# Reference Title Reference Citation
1. Schwann cells synthesize type V collagen that contains a novel alpha 4 chain. Molecular cloning, biochemical characterization, and high affinity heparin binding of alpha 4(V) collagen. Chernousov MA, etal., J Biol Chem 2000 Sep 8;275(36):28208-15.
2. 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.
3. Gene Data Set MGD Curation, June 12, 2002
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Constitutive release of alpha4 type V collagen N-terminal domain by Schwann cells and binding to cell surface and extracellular matrix heparan sulfate proteoglycans. Rothblum K, etal., J Biol Chem. 2004 Dec 3;279(49):51282-8. Epub 2004 Sep 20.
Additional References at PubMed
PMID:15908193   PMID:16407548   PMID:23376485   PMID:27559042  


Genomics

Comparative Map Data
Col5a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8827,580,768 - 27,626,002 (-)NCBIGRCr8
mRatBN7.2819,304,564 - 19,349,809 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl819,304,571 - 19,349,853 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx823,323,956 - 23,369,191 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0821,621,800 - 21,667,038 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0819,534,265 - 19,579,445 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0821,786,324 - 21,831,751 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl821,786,324 - 21,831,668 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0821,842,413 - 21,887,757 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4819,789,061 - 19,834,241 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1819,789,060 - 19,834,241 (-)NCBI
Celera820,699,885 - 20,745,065 (-)NCBICelera
Cytogenetic Map8q13NCBI
COL5A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38199,959,561 - 10,010,504 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl199,959,561 - 10,010,504 (-)EnsemblGRCh38hg38GRCh38
GRCh371910,070,237 - 10,121,180 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36199,931,237 - 9,982,147 (-)NCBINCBI36Build 36hg18NCBI36
Build 34199,931,236 - 9,982,147NCBI
Celera199,965,704 - 10,016,619 (-)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef199,650,383 - 9,701,624 (-)NCBIHuRef
CHM1_11910,069,976 - 10,120,955 (-)NCBICHM1_1
T2T-CHM13v2.01910,085,749 - 10,136,694 (-)NCBIT2T-CHM13v2.0
Col5a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39920,681,353 - 20,726,363 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl920,681,346 - 20,726,363 (-)EnsemblGRCm39 Ensembl
GRCm38920,770,050 - 20,815,117 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl920,770,050 - 20,815,067 (-)EnsemblGRCm38mm10GRCm38
MGSCv37920,574,494 - 20,619,478 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36920,520,452 - 20,565,436 (-)NCBIMGSCv36mm8
Celera918,038,765 - 18,083,744 (-)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.63NCBI
Col5a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554951,347,171 - 1,386,683 (-)NCBIChiLan1.0ChiLan1.0
COL5A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22014,878,468 - 14,929,787 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11913,878,772 - 13,930,485 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0199,512,028 - 9,563,306 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11910,173,669 - 10,219,487 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1910,174,519 - 10,218,974 (-)Ensemblpanpan1.1panPan2
COL5A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12051,037,604 - 51,075,220 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2051,037,621 - 51,074,993 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2050,904,135 - 50,941,637 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02051,559,592 - 51,597,067 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2051,559,592 - 51,597,082 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12050,767,386 - 50,804,867 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02051,194,321 - 51,231,828 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02051,435,361 - 51,472,809 (+)NCBIUU_Cfam_GSD_1.0
Col5a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,916,821 - 209,952,872 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936659402,637 - 437,697 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936659401,834 - 437,896 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL5A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl268,827,562 - 68,869,888 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1268,828,197 - 68,869,914 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2269,156,853 - 69,193,735 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COL5A3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,033,298 - 9,092,061 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl69,033,287 - 9,091,826 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607410,981,575 - 11,045,222 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col5a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248282,216,179 - 2,254,868 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col5a3
371 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:148
Count of miRNA genes:104
Interacting mature miRNAs:124
Transcripts:ENSRNOT00000027897
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat

Markers in Region
D8Rat53  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2819,331,152 - 19,331,310 (+)MAPPERmRatBN7.2
Rnor_6.0821,813,070 - 21,813,227NCBIRnor6.0
Rnor_5.0821,869,159 - 21,869,316UniSTSRnor5.0
RGSC_v3.4819,815,642 - 19,815,800RGDRGSC3.4
RGSC_v3.4819,815,643 - 19,815,800UniSTSRGSC3.4
RGSC_v3.1819,815,643 - 19,815,800RGD
Celera820,726,467 - 20,726,624UniSTS
RH 3.4 Map8181.4UniSTS
RH 3.4 Map8181.4RGD
SHRSP x BN Map814.26UniSTS
SHRSP x BN Map814.26RGD
Cytogenetic Map8q13UniSTS


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 20 8 2 5 7 28 14 3 5
Low 3 19 24 16 16 16 3 4 44 34 26 8 3
Below cutoff 4 25 25 1 25 2 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027897   ⟹   ENSRNOP00000027897
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl819,304,571 - 19,349,853 (-)Ensembl
Rnor_6.0 Ensembl821,786,324 - 21,831,668 (-)Ensembl
RefSeq Acc Id: NM_021760   ⟹   NP_068528
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8827,580,768 - 27,625,948 (-)NCBI
mRatBN7.2819,304,571 - 19,349,756 (-)NCBI
Rnor_6.0821,786,324 - 21,831,668 (-)NCBI
Rnor_5.0821,842,413 - 21,887,757 (-)NCBI
RGSC_v3.4819,789,061 - 19,834,241 (-)RGD
Celera820,699,885 - 20,745,065 (-)RGD
Sequence:
RefSeq Acc Id: XM_039082051   ⟹   XP_038937979
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8827,580,768 - 27,626,002 (-)NCBI
mRatBN7.2819,305,354 - 19,349,809 (-)NCBI
RefSeq Acc Id: XM_039082052   ⟹   XP_038937980
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8827,580,768 - 27,616,033 (-)NCBI
mRatBN7.2819,304,564 - 19,339,879 (-)NCBI
RefSeq Acc Id: XM_039082053   ⟹   XP_038937981
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8827,580,768 - 27,604,765 (-)NCBI
mRatBN7.2819,304,564 - 19,328,568 (-)NCBI
RefSeq Acc Id: XM_039082054   ⟹   XP_038937982
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8827,580,768 - 27,604,941 (-)NCBI
mRatBN7.2819,304,564 - 19,328,741 (-)NCBI
RefSeq Acc Id: XM_063266064   ⟹   XP_063122134
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8827,580,768 - 27,611,624 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_068528   ⟸   NM_021760
- Peptide Label: precursor
- UniProtKB: Q9JI04 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000027897   ⟸   ENSRNOT00000027897
RefSeq Acc Id: XP_038937980   ⟸   XM_039082052
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038937982   ⟸   XM_039082054
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038937981   ⟸   XM_039082053
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038937979   ⟸   XM_039082051
- Peptide Label: isoform X1
- UniProtKB: F7EVZ0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122134   ⟸   XM_063266064
- Peptide Label: isoform X3
Protein Domains
Fibrillar collagen NC1   Thrombospondin-like N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JI04-F1-model_v2 AlphaFold Q9JI04 1-1737 view protein structure

Transcriptome

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

Promoters
RGD ID:13695763
Promoter ID:EPDNEW_R6288
Type:multiple initiation site
Name:Col5a3_1
Description:collagen type V alpha 3 chain
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0821,831,715 - 21,831,775EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70922 AgrOrtholog
BioCyc Gene G2FUF-31459 BioCyc
Ensembl Genes ENSRNOG00000020525 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027897.5 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.1000 UniProtKB/TrEMBL
  2.60.120.200 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  ConA-like_subgrp UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  TSPN-like_N UniProtKB/TrEMBL
KEGG Report rno:60379 UniProtKB/TrEMBL
NCBI Gene 60379 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(XXIII) CHAIN UniProtKB/TrEMBL
  FIBRILLAR COLLAGEN NC1 DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
PhenoGen Col5a3 PhenoGen
PROSITE NC1_FIB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000020525 RatGTEx
SMART COLFI UniProtKB/TrEMBL
  TSPN UniProtKB/TrEMBL
Superfamily-SCOP ConA_like_lec_gl UniProtKB/TrEMBL
UniProt A6JNL5_RAT UniProtKB/TrEMBL
  F7EVZ0 ENTREZGENE, UniProtKB/TrEMBL
  Q9JI04 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-27 Col5a3  collagen type V alpha 3 chain  Col5a3  collagen, type V, alpha 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-25 Col5a3  collagen, type V, alpha 3  Col5a3  procollagen, type V, alpha 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Col5a3  procollagen, type V, alpha 3    collagen, type V, alpha 3  Name updated 1299863 APPROVED
2002-07-09 Col5a3  collagen, type V, alpha 3      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression human homolog expressed in heart, placenta, uterus, and brain 70693