Col6a3 (collagen type VI alpha 3 chain) - Rat Genome Database

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Gene: Col6a3 (collagen type VI alpha 3 chain) Rattus norvegicus
Analyze
Symbol: Col6a3
Name: collagen type VI alpha 3 chain
RGD ID: 1308704
Description: Predicted to enable serine-type endopeptidase inhibitor activity. Involved in response to glucose. Predicted to be located in extracellular matrix; extracellular space; and sarcolemma. Predicted to be part of collagen trimer. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); chronic kidney disease; dystonia 27; muscular dystrophy (multiple); and primary open angle glaucoma. Orthologous to human COL6A3 (collagen type VI alpha 3 chain); PARTICIPATES IN syndecan signaling pathway; cell-extracellular matrix signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,2,2-tetramine; 4,4'-diaminodiphenylmethane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: collagen alpha-3(VI) chain; collagen, type VI, alpha 3; LOC367313; procollagen, type VI, alpha 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8998,809,171 - 98,887,060 (-)NCBIGRCr8
mRatBN7.2991,361,578 - 91,439,434 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl991,361,583 - 91,439,471 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0997,926,784 - 98,004,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl997,926,787 - 98,004,546 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0997,607,496 - 97,685,349 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4989,990,129 - 90,043,697 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1990,169,794 - 90,232,286 (-)NCBI
Celera988,906,089 - 88,983,949 (-)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,2,2-tetramine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
8-Br-cAMP  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bleomycin A2  (ISO)
bucladesine  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
captan  (ISO)
carbon nanotube  (ISO)
carnosic acid  (ISO)
CGP 52608  (ISO)
choline  (ISO)
corosolic acid  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
diethylstilbestrol  (ISO)
diquat  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
ferric oxide  (EXP)
folic acid  (ISO)
folpet  (ISO)
fonofos  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
inulin  (ISO)
isoflavones  (ISO)
isotretinoin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
medroxyprogesterone acetate  (ISO)
mercury dibromide  (ISO)
methyl methanesulfonate  (ISO)
N-ethyl-N-nitrosourea  (ISO)
nickel sulfate  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
parathion  (ISO)
PCB138  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
quercetin  (ISO)
resveratrol  (EXP)
rotenone  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (EXP)
sodium arsenite  (ISO)
Soman  (EXP)
sotorasib  (ISO)
streptozocin  (EXP)
sulindac  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
trametinib  (ISO)
tributylstannane  (EXP)
Tributyltin oxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triphenyl phosphate  (EXP,ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (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. Knockdown of FUT11 inhibits the progression of gastric cancer via the PI3K/AKT pathway. Cao W, etal., Heliyon. 2023 Jul 7;9(7):e17600. doi: 10.1016/j.heliyon.2023.e17600. eCollection 2023 Jul.
2. Down Syndrome Related Muscle Hypotonia: Association with COL6A3 Functional SNP rs2270669. Dey A, etal., Front Genet. 2013 Apr 22;4:57. doi: 10.3389/fgene.2013.00057. eCollection 2013.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. A Fragment of Collagen Type VI alpha-3 chain is Elevated in Serum from Patients with Gastrointestinal Disorders. Holm Nielsen S, etal., Sci Rep. 2020 Apr 3;10(1):5910. doi: 10.1038/s41598-020-62474-1.
5. Collagen Type VI Alpha 3 Chain Promotes Epithelial-Mesenchymal Transition in Bladder Cancer Cells via Transforming Growth Factor β (TGF-β)/Smad Pathway. Huang Y, etal., Med Sci Monit. 2018 Aug 1;24:5346-5354. doi: 10.12659/MSM.909811.
6. Mutation burden analysis of six common mental disorders in African Americans by whole genome sequencing. Liu Y, etal., Hum Mol Genet. 2022 Nov 10;31(22):3769-3776. doi: 10.1093/hmg/ddac129.
7. Identification and Analysis of Key Genes Driving Gastric Cancer Through Bioinformatics. Liu Z, etal., Genet Test Mol Biomarkers. 2021 Jan;25(1):1-11. doi: 10.1089/gtmb.2020.0126.
8. Genome-wide DNA methylation analysis reveals a potential mechanism for the pathogenesis and development of uterine leiomyomas. Maekawa R, etal., PLoS One. 2013 Jun 20;8(6):e66632. doi: 10.1371/journal.pone.0066632. Print 2013.
9. 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.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Hyperglycemic glucose concentrations up-regulate the expression of type VI collagen in vitro. Relevance to alterations of peripheral nerves in diabetes mellitus. Muona P, etal., Am J Pathol. 1993 May;142(5):1586-97.
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. Missense mutation in a von Willebrand factor type A domain of the alpha 3(VI) collagen gene (COL6A3) in a family with Bethlem myopathy. Pan TC, etal., Hum Mol Genet. 1998 May;7(5):807-12.
14. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
15. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
16. GOA pipeline RGD automated data pipeline
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. Comprehensive gene review and curation RGD comprehensive gene curation
20. Identification of Missense Extracellular Matrix Gene Variants in a Large Glaucoma Pedigree and Investigation of the N700S Thrombospondin-1 Variant in Normal and Glaucomatous Trabecular Meshwork Cells. Wirtz MK, etal., Curr Eye Res. 2022 Jan;47(1):79-90. doi: 10.1080/02713683.2021.1945109. Epub 2021 Jul 6.
21. Identification of 13 novel susceptibility loci for early-onset myocardial infarction, hypertension, or chronic kidney disease. Yamada Y, etal., Int J Mol Med. 2018 Nov;42(5):2415-2436. doi: 10.3892/ijmm.2018.3852. Epub 2018 Sep 4.
22. Integrated Analysis of Multiple Microarray Studies to Identify Core Gene-Expression Signatures Involved in Tubulointerstitial Injury in Diabetic Nephropathy. Zhou H, etal., Biomed Res Int. 2022 May 10;2022:9554658. doi: 10.1155/2022/9554658. eCollection 2022.
23. Circular RNA expression profile and potential function of hsa_circRNA_101238 in human thoracic aortic dissection. Zou M, etal., Oncotarget. 2017 Jul 5;8(47):81825-81837. doi: 10.18632/oncotarget.18998. eCollection 2017 Oct 10.
Additional References at PubMed
PMID:8806434   PMID:10444069   PMID:16810681   PMID:18400749   PMID:19056867   PMID:20551380   PMID:23376485   PMID:23533145   PMID:23658023   PMID:24563484   PMID:24769233   PMID:27068509  
PMID:27559042   PMID:33450132  


Genomics

Comparative Map Data
Col6a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8998,809,171 - 98,887,060 (-)NCBIGRCr8
mRatBN7.2991,361,578 - 91,439,434 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl991,361,583 - 91,439,471 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0997,926,784 - 98,004,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl997,926,787 - 98,004,546 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0997,607,496 - 97,685,349 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4989,990,129 - 90,043,697 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1990,169,794 - 90,232,286 (-)NCBI
Celera988,906,089 - 88,983,949 (-)NCBICelera
Cytogenetic Map9q36NCBI
COL6A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382237,324,018 - 237,414,164 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2237,324,003 - 237,414,328 (-)EnsemblGRCh38hg38GRCh38
GRCh372238,232,661 - 238,322,807 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362237,897,401 - 237,987,559 (-)NCBINCBI36Build 36hg18NCBI36
Build 342238,014,661 - 238,104,820NCBI
Celera2231,946,425 - 232,036,576 (-)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2230,024,688 - 230,114,910 (-)NCBIHuRef
CHM1_12238,238,749 - 238,328,955 (-)NCBICHM1_1
T2T-CHM13v2.02237,815,093 - 237,905,193 (-)NCBIT2T-CHM13v2.0
Col6a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39190,694,582 - 90,771,710 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl190,693,645 - 90,771,693 (-)EnsemblGRCm39 Ensembl
GRCm38190,766,860 - 90,844,001 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl190,765,923 - 90,843,971 (-)EnsemblGRCm38mm10GRCm38
MGSCv37192,663,435 - 92,740,514 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36192,597,264 - 92,674,343 (-)NCBIMGSCv36mm8
MGSCv36191,192,168 - 91,253,776 (-)NCBIMGSCv36mm8
Celera193,712,460 - 93,789,439 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map145.53NCBI
Col6a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555422,887,723 - 2,949,062 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555422,869,183 - 2,950,569 (+)NCBIChiLan1.0ChiLan1.0
COL6A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213139,953,644 - 140,044,998 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B139,968,611 - 140,060,569 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B124,554,478 - 124,644,482 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B243,407,786 - 243,497,700 (-)NCBIpanpan1.1PanPan1.1panPan2
COL6A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12547,971,439 - 48,052,673 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2547,971,315 - 48,052,402 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2548,469,819 - 48,549,745 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02548,356,794 - 48,438,226 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2548,356,805 - 48,438,297 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12548,233,582 - 48,313,731 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02548,022,112 - 48,102,355 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02548,253,810 - 48,333,969 (-)NCBIUU_Cfam_GSD_1.0
Col6a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303189,956,267 - 190,034,205 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936525921,725 - 983,377 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936525905,419 - 983,486 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL6A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15137,011,433 - 137,103,709 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115137,011,549 - 137,103,687 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215151,450,581 - 151,542,424 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COL6A3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110123,326,337 - 123,418,836 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10123,327,102 - 123,400,114 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604075,975,426 - 76,067,621 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col6a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248472,787,319 - 2,863,853 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248472,786,560 - 2,863,800 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col6a3
544 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:155
Count of miRNA genes:107
Interacting mature miRNAs:115
Transcripts:ENSRNOT00000026707, ENSRNOT00000026719
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
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)98636963192058970Rat

Markers in Region
D9Got112  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2991,424,503 - 91,424,625 (+)MAPPERmRatBN7.2
Rnor_6.0997,989,706 - 97,989,827NCBIRnor6.0
Rnor_5.0997,670,418 - 97,670,539UniSTSRnor5.0
RGSC_v3.4990,027,925 - 90,028,047RGDRGSC3.4
RGSC_v3.4990,027,926 - 90,028,047UniSTSRGSC3.4
RGSC_v3.1990,232,695 - 90,232,816RGD
Celera988,969,000 - 88,969,121UniSTS
RH 3.4 Map9784.69UniSTS
RH 3.4 Map9784.69RGD
RH 2.0 Map9936.5RGD
Cytogenetic Map9q35-q36UniSTS
D9Mco92  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2991,395,423 - 91,395,703 (+)MAPPERmRatBN7.2
Rnor_6.0997,960,626 - 97,960,905NCBIRnor6.0
Rnor_5.0997,641,338 - 97,641,617UniSTSRnor5.0
RGSC_v3.4989,998,846 - 89,999,125UniSTSRGSC3.4
Celera988,939,924 - 88,940,201UniSTS
Cytogenetic Map9q35-q36UniSTS
RH129385  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2991,361,635 - 91,361,855 (+)MAPPERmRatBN7.2
Rnor_6.0997,926,842 - 97,927,061NCBIRnor6.0
Rnor_5.0997,607,554 - 97,607,773UniSTSRnor5.0
RGSC_v3.4989,965,060 - 89,965,279UniSTSRGSC3.4
Celera988,906,147 - 88,906,366UniSTS
RH 3.4 Map9783.99UniSTS
Cytogenetic Map9q35-q36UniSTS
01.MMHAP90FLA1.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2991,431,429 - 91,431,584 (+)MAPPERmRatBN7.2
Rnor_6.0997,996,619 - 97,996,773NCBIRnor6.0
Rnor_5.0997,677,337 - 97,677,491UniSTSRnor5.0
RGSC_v3.4990,035,767 - 90,035,921UniSTSRGSC3.4
Celera988,975,924 - 88,976,078UniSTS
Cytogenetic Map9q35-q36UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001427497 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003754548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767343 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767344 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000026707
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl997,927,981 - 97,989,297 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000026719
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl991,361,583 - 91,439,471 (-)Ensembl
Rnor_6.0 Ensembl997,927,981 - 97,989,297 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000077924
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl991,361,583 - 91,439,471 (-)Ensembl
Rnor_6.0 Ensembl997,926,787 - 98,004,546 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081301
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl997,927,981 - 97,989,297 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000087595
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl991,361,583 - 91,439,471 (-)Ensembl
Rnor_6.0 Ensembl997,927,814 - 97,989,297 (-)Ensembl
RefSeq Acc Id: NM_001427497   ⟹   NP_001414426
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8998,809,171 - 98,886,958 (-)NCBI
RefSeq Acc Id: XM_063267519   ⟹   XP_063123589
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8998,825,084 - 98,887,060 (-)NCBI
RefSeq Acc Id: XM_063267520   ⟹   XP_063123590
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8998,825,101 - 98,887,055 (-)NCBI
RefSeq Acc Id: NP_001414426   ⟸   NM_001427497
- Peptide Label: precursor
- UniProtKB: A0A8I6AHL9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063123589   ⟸   XM_063267519
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123590   ⟸   XM_063267520
- Peptide Label: isoform X2
Protein Domains
BPTI/Kunitz inhibitor   Fibronectin type-III   VWFA

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:1308704 AgrOrtholog
BioCyc Gene G2FUF-26734 BioCyc
Ensembl Genes ENSRNOG00000019648 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026719.6 UniProtKB/TrEMBL
  ENSRNOT00000077924.2 UniProtKB/TrEMBL
  ENSRNOT00000087595.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
  4.10.410.10 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  Collagen-VI/PIF UniProtKB/TrEMBL
  ECM_Assembly_Org UniProtKB/TrEMBL
  FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Kunitz_BPTI UniProtKB/TrEMBL
  Kunitz_BPTI_sf UniProtKB/TrEMBL
  Prtase_inh_Kunz-CS UniProtKB/TrEMBL
  vWA_collagen_alpha3-VI-like UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
NCBI Gene 367313 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(XXI) CHAIN UniProtKB/TrEMBL
  COLLAGEN ALPHA-3(VI) CHAIN UniProtKB/TrEMBL
  UNCHARACTERIZED UniProtKB/TrEMBL
  VWFA DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam Collagen UniProtKB/TrEMBL
  Kunitz_BPTI UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
PhenoGen Col6a3 PhenoGen
PRINTS BASICPTASE UniProtKB/TrEMBL
  VWFADOMAIN UniProtKB/TrEMBL
PROSITE BPTI_KUNITZ_1 UniProtKB/TrEMBL
  BPTI_KUNITZ_2 UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
  VWFA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019648 RatGTEx
SMART SM00131 UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
Superfamily-SCOP SSF49265 UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF57362 UniProtKB/TrEMBL
UniProt A0A8I5ZTR6_RAT UniProtKB/TrEMBL
  A0A8I6ADR1_RAT UniProtKB/TrEMBL
  A0A8I6AHL9 ENTREZGENE, UniProtKB/TrEMBL
  A6JQM5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-01 Col6a3  collagen type VI alpha 3 chain  Col6a3  collagen, type VI, alpha 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Col6a3  collagen, type VI, alpha 3  Col6a3  procollagen, type VI, alpha 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Col6a3  procollagen, type VI, alpha 3   Col6a3_predicted  procollagen, type VI, alpha 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Col6a3_predicted  procollagen, type VI, alpha 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED