Col6a2 (collagen type VI alpha 2 chain) - Rat Genome Database

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Gene: Col6a2 (collagen type VI alpha 2 chain) Rattus norvegicus
Analyze
Symbol: Col6a2
Name: collagen type VI alpha 2 chain
RGD ID: 1305585
Description: Predicted to enable collagen binding activity. Involved in response to glucose. Predicted to be located in extracellular region and sarcolemma. Predicted to be part of protein-containing complex. Predicted to be active in extracellular matrix. Human ortholog(s) of this gene implicated in Bethlem myopathy and Ullrich congenital muscular dystrophy 1B. Orthologous to human COL6A2 (collagen type VI alpha 2 chain); PARTICIPATES IN syndecan signaling pathway; cell-extracellular matrix signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: collagen alpha-2(VI) chain; collagen, type VI, alpha 2; LOC361821; procollagen, type VI, alpha 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82012,021,182 - 12,048,932 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2012,021,265 - 12,057,042 (+)EnsemblGRCr8
mRatBN7.22012,021,676 - 12,049,425 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2012,021,767 - 12,057,564 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2012,718,053 - 12,745,716 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02012,078,971 - 12,106,636 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,550,765 - 12,578,421 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,773,472 - 12,801,179 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,773,427 - 12,801,180 (+)Ensemblrn6Rnor6.0
Rnor_5.02014,931,484 - 14,959,214 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42012,436,783 - 12,464,512 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2013,520,111 - 13,547,903 (+)NCBICelera
RGSC_v3.12012,445,140 - 12,461,566 (+)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,2,2-tetramine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bucladesine  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
cantharidin  (ISO)
captan  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
cisplatin  (ISO)
clothianidin  (ISO)
clotrimazole  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
cytarabine  (ISO)
D-glucose  (ISO)
DDT  (EXP)
decabromodiphenyl ether  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (ISO)
dichromium trioxide  (ISO)
diethyl phthalate  (ISO)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
enniatin  (ISO)
erianin  (ISO)
ethanol  (ISO)
eugenol  (EXP)
Evodiamine  (ISO)
folic acid  (ISO)
folpet  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
glucose  (ISO)
inulin  (ISO)
isotretinoin  (ISO)
lead diacetate  (ISO)
Licochalcone B  (ISO)
lipopolysaccharide  (ISO)
medroxyprogesterone acetate  (ISO)
methamphetamine  (ISO)
methimazole  (EXP)
N-nitrosodiethylamine  (EXP)
naled  (ISO)
niclosamide  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
paclitaxel  (ISO)
paracetamol  (ISO)
pentane-2,3-dione  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
phenytoin  (ISO)
pirinixic acid  (ISO)
propanal  (ISO)
Ptaquiloside  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP,ISO)
Soman  (EXP)
streptozocin  (EXP)
sulindac  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
testosterone enanthate  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP,ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
zinc atom  (ISO)
zinc(0)  (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. 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. Type VI collagen mutations in Bethlem myopathy, an autosomal dominant myopathy with contractures. Jobsis GJ, etal., Nat Genet. 1996 Sep;14(1):113-5.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. 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.
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Comprehensive gene review and curation RGD comprehensive gene curation
13. Type VI collagen gene expression in experimental liver fibrosis: quantitation and spatial distribution of mRNAs, and immunodetection of the protein. Takahara T, etal., Liver. 1995 Apr;15(2):78-86.
14. Identification of potentially relevant genes for myocardial infarction using RNA sequencing data analysis. Zhao Q, etal., Exp Ther Med. 2018 Feb;15(2):1456-1464. doi: 10.3892/etm.2017.5580. Epub 2017 Nov 28.
Additional References at PubMed
PMID:8806434   PMID:12477932   PMID:16810681   PMID:18400749   PMID:19199708   PMID:20551380   PMID:23658023   PMID:24006456   PMID:24769233   PMID:27068509   PMID:27559042  


Genomics

Comparative Map Data
Col6a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82012,021,182 - 12,048,932 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2012,021,265 - 12,057,042 (+)EnsemblGRCr8
mRatBN7.22012,021,676 - 12,049,425 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2012,021,767 - 12,057,564 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2012,718,053 - 12,745,716 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02012,078,971 - 12,106,636 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,550,765 - 12,578,421 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,773,472 - 12,801,179 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,773,427 - 12,801,180 (+)Ensemblrn6Rnor6.0
Rnor_5.02014,931,484 - 14,959,214 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42012,436,783 - 12,464,512 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2013,520,111 - 13,547,903 (+)NCBICelera
RGSC_v3.12012,445,140 - 12,461,566 (+)NCBI
Cytogenetic Map20p12NCBI
COL6A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382146,098,112 - 46,132,848 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2146,096,722 - 46,132,851 (+)Ensemblhg38GRCh38
GRCh372147,518,026 - 47,552,762 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362146,342,461 - 46,377,191 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342146,342,469 - 46,374,147NCBI
Celera2132,629,797 - 32,665,343 (+)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2132,899,133 - 32,933,853 (+)NCBIHuRef
CHM1_12147,078,809 - 47,113,491 (+)NCBICHM1_1
T2T-CHM13v2.02144,476,193 - 44,510,935 (+)NCBIT2T-CHM13v2.0
Col6a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391076,431,590 - 76,459,464 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1076,431,596 - 76,459,464 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381076,595,756 - 76,623,630 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1076,595,762 - 76,623,630 (-)Ensemblmm10GRCm38
MGSCv371076,058,501 - 76,086,149 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361076,039,478 - 76,067,030 (-)NCBIMGSCv36mm8
Celera1077,640,875 - 77,668,353 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.32NCBI
Col6a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540742,575,170 - 42,600,495 (+)Ensembl
ChiLan1.0NW_00495540742,575,677 - 42,600,967 (+)NCBIChiLan1.0ChiLan1.0
COL6A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22242,198,729 - 42,234,261 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12137,070,722 - 37,105,973 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02132,442,859 - 32,478,076 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12145,696,865 - 45,731,192 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2145,710,491 - 45,730,895 (+)EnsemblpanPan2panpan1.1
COL6A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13139,433,174 - 39,448,051 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3138,644,112 - 38,676,023 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03139,056,885 - 39,089,141 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3139,056,960 - 39,089,152 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13138,918,380 - 38,950,842 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03138,893,797 - 38,911,284 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03139,397,110 - 39,429,683 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Col6a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497138,700,077 - 38,735,225 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936778394,953 - 430,113 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936778394,985 - 430,070 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL6A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.213218,600,867 - 218,616,309 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL6A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,724,355 - 89,758,389 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl289,737,003 - 89,758,425 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605418,038,715 - 18,072,843 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col6a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474531,258,825 - 31,272,524 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474531,246,458 - 31,272,403 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Col6a2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18106,522,041 - 106,550,111 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Col6a2
191 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:282
Count of miRNA genes:135
Interacting mature miRNAs:159
Transcripts:ENSRNOT00000001695
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)20418947649189476Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804392029865039Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
1598870Bp289Blood pressure QTL 2892.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)20821635953216359Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804392015089182Rat
1598858Cm61Cardiac mass QTL 613.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)20821635953216359Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
BE115058  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22012,047,237 - 12,047,394 (+)MAPPERmRatBN7.2
Rnor_6.02012,798,993 - 12,799,149NCBIRnor6.0
Rnor_5.02014,957,028 - 14,957,184UniSTSRnor5.0
RGSC_v3.42012,462,326 - 12,462,482UniSTSRGSC3.4
Celera2013,545,688 - 13,545,844UniSTS
RH 3.4 Map20175.73UniSTS
Cytogenetic Map20p12UniSTS
RH127992  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22012,049,196 - 12,049,391 (+)MAPPERmRatBN7.2
Rnor_6.02012,800,951 - 12,801,145NCBIRnor6.0
Rnor_5.02014,958,986 - 14,959,180UniSTSRnor5.0
RGSC_v3.42012,464,284 - 12,464,478UniSTSRGSC3.4
Celera2013,547,675 - 13,547,869UniSTS
RH 3.4 Map20153.7UniSTS
Cytogenetic Map20p12UniSTS
RH140241  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr82012,048,757 - 12,048,924 (+)Marker Load Pipeline
mRatBN7.22012,049,249 - 12,049,417 (+)MAPPERmRatBN7.2
Rnor_6.02012,801,004 - 12,801,171NCBIRnor6.0
Rnor_5.02014,959,039 - 14,959,206UniSTSRnor5.0
RGSC_v3.42012,464,337 - 12,464,504UniSTSRGSC3.4
Celera2013,547,728 - 13,547,895UniSTS
RH 3.4 Map20157.45UniSTS
Cytogenetic Map20p12UniSTS


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 67 157 91 90 59 36 59 6 300 136 11 136 81 92 31 15 15

Sequence


Ensembl Acc Id: ENSRNOT00000001695   ⟹   ENSRNOP00000001695
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,021,265 - 12,049,451 (+)Ensembl
mRatBN7.2 Ensembl2012,029,643 - 12,049,425 (+)Ensembl
Rnor_6.0 Ensembl2012,773,427 - 12,801,180 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097191   ⟹   ENSRNOP00000082451
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,021,265 - 12,057,042 (+)Ensembl
mRatBN7.2 Ensembl2012,021,767 - 12,057,564 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000109457   ⟹   ENSRNOP00000077392
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,021,265 - 12,046,757 (+)Ensembl
mRatBN7.2 Ensembl2012,021,767 - 12,047,248 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000116437   ⟹   ENSRNOP00000089823
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,021,265 - 12,048,933 (+)Ensembl
mRatBN7.2 Ensembl2012,021,767 - 12,049,425 (+)Ensembl
RefSeq Acc Id: NM_001100741   ⟹   NP_001094211
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82012,021,273 - 12,048,932 (+)NCBI
mRatBN7.22012,021,767 - 12,049,425 (+)NCBI
Rnor_6.02012,773,520 - 12,801,179 (+)NCBI
Rnor_5.02014,931,484 - 14,959,214 (+)NCBI
RGSC_v3.42012,436,783 - 12,464,512 (+)RGD
Celera2013,520,111 - 13,547,903 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256300   ⟹   XP_006256362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82012,021,182 - 12,046,986 (+)NCBI
mRatBN7.22012,021,676 - 12,047,478 (+)NCBI
Rnor_6.02012,773,472 - 12,799,233 (+)NCBI
Rnor_5.02014,931,484 - 14,959,214 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001094211   ⟸   NM_001100741
- Peptide Label: precursor
- UniProtKB: F1LNH3 (UniProtKB/TrEMBL),   A6JKC0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256362   ⟸   XM_006256300
- Peptide Label: isoform X1
- UniProtKB: A0A8I5Y5R7 (UniProtKB/TrEMBL),   A0A8I5ZTZ9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000001695   ⟸   ENSRNOT00000001695
Ensembl Acc Id: ENSRNOP00000077392   ⟸   ENSRNOT00000109457
Ensembl Acc Id: ENSRNOP00000089823   ⟸   ENSRNOT00000116437
Ensembl Acc Id: ENSRNOP00000082451   ⟸   ENSRNOT00000097191
Protein Domains
VWFA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LNH3-F1-model_v2 AlphaFold F1LNH3 1-1027 view protein structure

Transcriptome

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

Promoters
RGD ID:13701513
Promoter ID:EPDNEW_R12037
Type:multiple initiation site
Name:Col6a2_1
Description:collagen type VI alpha 2 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_6.02012,773,512 - 12,773,572EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305585 AgrOrtholog
BioCyc Gene G2FUF-4194 BioCyc
Ensembl Genes ENSRNOG00000001254 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001695 ENTREZGENE
  ENSRNOT00000001695.8 UniProtKB/TrEMBL
  ENSRNOT00000097191.2 UniProtKB/TrEMBL
  ENSRNOT00000109457 ENTREZGENE
  ENSRNOT00000109457.2 UniProtKB/TrEMBL
  ENSRNOT00000116437.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/TrEMBL
  6-Phosphogluconate Dehydrogenase, domain 3 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7306918 IMAGE-MGC_LOAD
InterPro Collagen UniProtKB/TrEMBL
  Collagen-VI/PIF UniProtKB/TrEMBL
  Collagen_superfamily UniProtKB/TrEMBL
  ECM_Assembly_Org UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:361821 UniProtKB/TrEMBL
MGC_CLONE MGC:109204 IMAGE-MGC_LOAD
NCBI Gene 361821 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA-2(VI) CHAIN UniProtKB/TrEMBL
  COLLAGEN ALPHA-6(VI) CHAIN UniProtKB/TrEMBL
  COLLAGEN TYPE VI ALPHA 2 CHAIN UniProtKB/TrEMBL
  VWFA DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  VWFA DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  VWFA DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam Collagen UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
PhenoGen Col6a2 PhenoGen
PRINTS VWFADOMAIN UniProtKB/TrEMBL
PROSITE VWFA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001254 RatGTEx
SMART VWA UniProtKB/TrEMBL
Superfamily-SCOP SSF53300 UniProtKB/TrEMBL
UniProt A0A8I5Y5R7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZTZ9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ALT7_RAT UniProtKB/TrEMBL
  A6JKB9_RAT UniProtKB/TrEMBL
  A6JKC0 ENTREZGENE, UniProtKB/TrEMBL
  F1LNH3 ENTREZGENE, UniProtKB/TrEMBL
  Q5EB88_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-27 Col6a2  collagen type VI alpha 2 chain  Col6a2  collagen, type VI, alpha 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-25 Col6a2  collagen, type VI, alpha 2  Col6a2  procollagen, type VI, alpha 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Col6a2  procollagen, type VI, alpha 2  Col6a2_predicted  procollagen, type VI, alpha 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Col6a2_predicted  procollagen, type VI, alpha 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED