Col11a2 (collagen type XI alpha 2 chain) - Rat Genome Database

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Gene: Col11a2 (collagen type XI alpha 2 chain) Rattus norvegicus
Analyze
Symbol: Col11a2
Name: collagen type XI alpha 2 chain
RGD ID: 2373
Description: Predicted to be an extracellular matrix structural constituent conferring tensile strength. Involved in osteoblast differentiation. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in cleft palate; nonsyndromic deafness (multiple); and osteochondrodysplasia (multiple). Orthologous to human COL11A2 (collagen type XI alpha 2 chain); PARTICIPATES IN syndecan signaling pathway; cell-extracellular matrix signaling pathway; Entamoebiasis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Col11a2_mapped; collagen alpha-2(XI) chain; collagen alpha-2(XI) chain-like; collagen, type XI, alpha 2; LOC100911886; procollagen, type XI, alpha 2; procollagen, type XI, alpha 2 (mapped); type XI collagen alpha2 chain; Type XI collagen, alpha2 chain
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
GRCr8204,788,829 - 4,818,492 (-)NCBIGRCr8
mRatBN7.2204,786,932 - 4,816,598 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,538,850 - 5,567,338 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0204,900,602 - 4,929,090 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0205,381,825 - 5,410,188 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,829,324 - 3,859,022 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,830,164 - 3,859,018 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,908,541 - 5,938,415 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,924,452 - 4,953,310 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera206,387,407 - 6,415,975 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Association studies of candidate genes and cleft lip and palate taking into consideration geographical origin. Lace B, etal., Eur J Oral Sci. 2011 Dec;119(6):413-7. doi: 10.1111/j.1600-0722.2011.00877.x. Epub 2011 Oct 15.
3. Identification of an enhancer sequence within the first intron required for cartilage-specific transcription of the alpha2(XI) collagen gene. Liu Y, etal., J Biol Chem 2000 Apr 28;275(17):12712-8.
4. Autosomal recessive disorder otospondylomegaepiphyseal dysplasia is associated with loss-of-function mutations in the COL11A2 gene. Melkoniemi M, etal., Am J Hum Genet. 2000 Feb;66(2):368-77.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Genetic variants in COL2A1, COL11A2, and IRF6 contribute risk to nonsyndromic cleft palate. Nikopensius T, etal., Birth Defects Res A Clin Mol Teratol. 2010 Sep;88(9):748-56. doi: 10.1002/bdra.20700.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
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. Immature osteoblastic cells express the pro-alpha2(XI) collagen gene during bone formation in vitro and in vivo. Urabe K, etal., J Orthop Res 2001 Nov;19(6):1013-20.
14. Autosomal dominant and recessive osteochondrodysplasias associated with the COL11A2 locus. Vikkula M, etal., Cell. 1995 Feb 10;80(3):431-7.
Additional References at PubMed
PMID:8662089   PMID:9188673   PMID:10581026   PMID:11237662   PMID:11668593   PMID:12673280   PMID:16033917   PMID:17683922  


Genomics

Comparative Map Data
Col11a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8204,788,829 - 4,818,492 (-)NCBIGRCr8
mRatBN7.2204,786,932 - 4,816,598 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,538,850 - 5,567,338 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0204,900,602 - 4,929,090 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0205,381,825 - 5,410,188 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,829,324 - 3,859,022 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,830,164 - 3,859,018 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,908,541 - 5,938,415 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,924,452 - 4,953,310 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera206,387,407 - 6,415,975 (-)NCBICelera
Cytogenetic Map20p12NCBI
COL11A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38633,162,694 - 33,193,519 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl633,162,681 - 33,192,499 (-)EnsemblGRCh38hg38GRCh38
GRCh37633,130,471 - 33,161,296 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36633,238,447 - 33,268,223 (-)NCBINCBI36Build 36hg18NCBI36
Build 34633,238,446 - 33,268,223NCBI
Celera634,684,835 - 34,714,611 (-)NCBICelera
Cytogenetic Map6p21.32NCBI
HuRef632,872,882 - 32,902,658 (-)NCBIHuRef
CHM1_1633,132,343 - 33,162,118 (-)NCBICHM1_1
T2T-CHM13v2.0632,984,047 - 33,014,927 (-)NCBIT2T-CHM13v2.0
Col11a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,257,462 - 34,285,659 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1734,258,411 - 34,285,659 (+)EnsemblGRCm39 Ensembl
GRCm381734,038,919 - 34,066,684 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,039,437 - 34,066,685 (+)EnsemblGRCm38mm10GRCm38
MGSCv371734,176,382 - 34,203,187 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361733,649,891 - 33,676,696 (+)NCBIMGSCv36mm8
Celera1736,785,570 - 36,812,404 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.98NCBI
Col11a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554371,740,402 - 1,766,490 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554371,739,426 - 1,767,087 (-)NCBIChiLan1.0ChiLan1.0
COL11A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2547,640,586 - 47,671,355 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1643,512,227 - 43,542,203 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0632,734,950 - 32,765,837 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1633,849,885 - 33,879,635 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl633,849,885 - 33,879,635 (-)Ensemblpanpan1.1panPan2
COL11A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1122,626,829 - 2,656,680 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl122,627,828 - 2,655,814 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha122,707,991 - 2,737,297 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0122,957,578 - 2,986,887 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl122,958,209 - 2,986,569 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1122,625,789 - 2,654,790 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0122,707,183 - 2,736,164 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0122,781,723 - 2,811,021 (-)NCBIUU_Cfam_GSD_1.0
Col11a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494638,267,952 - 38,297,103 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647625,663,755 - 25,691,344 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647625,663,563 - 25,692,315 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL11A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl725,204,491 - 25,234,888 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1725,204,496 - 25,234,880 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2729,768,749 - 29,799,129 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL11A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11738,882,591 - 38,912,602 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1738,882,745 - 38,911,625 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604432,996,813 - 33,026,801 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col11a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475423,614,570 - 23,639,591 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475423,614,486 - 23,640,489 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col11a2
331 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:230
Count of miRNA genes:148
Interacting mature miRNAs:167
Transcripts:ENSRNOT00000045533
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
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7175096Tcs1T cell selection QTL 1T cell selection trait (VT:0004917)expression2047270785024580Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126123605Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
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)20460660717617956Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat

Markers in Region
D20Yum79  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,795,650 - 4,795,808 (-)MAPPERmRatBN7.2
Rnor_6.0203,850,143 - 3,850,300NCBIRnor6.0
Rnor_5.0205,929,536 - 5,929,693UniSTSRnor5.0
RGSC_v3.4204,933,174 - 4,933,331UniSTSRGSC3.4
Celera206,396,129 - 6,396,284UniSTS
Cytogenetic Map20p12UniSTS
UniSTS:237626  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,816,872 - 4,817,110 (-)MAPPERmRatBN7.2
Rnor_6.0203,828,843 - 3,829,080NCBIRnor6.0
Rnor_5.0205,908,174 - 5,908,411UniSTSRnor5.0
RGSC_v3.4204,954,394 - 4,954,631UniSTSRGSC3.4
Celera206,417,059 - 6,417,296UniSTS
Cytogenetic Map20p12UniSTS
UniSTS:463405  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,787,570 - 4,788,444 (-)MAPPERmRatBN7.2
Rnor_6.0203,857,507 - 3,858,380NCBIRnor6.0
Rnor_5.0205,936,900 - 5,937,773UniSTSRnor5.0
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
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_001401302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_212528 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601582 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005497184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC098547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X95873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000045533   ⟹   ENSRNOP00000048846
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Rnor_6.0 Ensembl203,830,164 - 3,859,018 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000084117   ⟹   ENSRNOP00000071327
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Rnor_6.0 Ensembl203,830,199 - 3,843,445 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000085547   ⟹   ENSRNOP00000073041
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Rnor_6.0 Ensembl203,830,376 - 3,858,137 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000092329
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,797,778 - 4,812,745 (-)Ensembl
Rnor_6.0 Ensembl205,314,442 - 5,329,279 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104091   ⟹   ENSRNOP00000079082
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107648   ⟹   ENSRNOP00000082947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112730   ⟹   ENSRNOP00000097357
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000115128   ⟹   ENSRNOP00000080979
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120229   ⟹   ENSRNOP00000086235
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,786,929 - 4,815,985 (-)Ensembl
RefSeq Acc Id: NM_001401302   ⟹   NP_001388231
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,817,648 (-)NCBI
mRatBN7.2204,786,933 - 4,815,754 (-)NCBI
RefSeq Acc Id: NM_212528   ⟹   NP_997693
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,817,648 (-)NCBI
mRatBN7.2204,786,933 - 4,815,754 (-)NCBI
Rnor_6.0203,830,164 - 3,859,022 (+)NCBI
Rnor_5.0205,908,541 - 5,938,415 (+)NCBI
RGSC_v3.4204,924,452 - 4,953,310 (-)RGD
Celera206,387,407 - 6,415,975 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255929   ⟹   XP_006255991
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,326 - 3,859,019 (+)NCBI
Rnor_5.0205,908,541 - 5,938,415 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601580   ⟹   XP_017457069
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,324 - 3,859,019 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601581   ⟹   XP_017457070
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,326 - 3,859,019 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601582   ⟹   XP_017457071
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,324 - 3,859,019 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601583   ⟹   XP_017457072
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,326 - 3,859,019 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601584   ⟹   XP_017457073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,326 - 3,859,019 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601585   ⟹   XP_017457074
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,816,598 (-)NCBI
Rnor_6.0203,829,325 - 3,859,019 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098499   ⟹   XP_038954427
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,809,857 (-)NCBI
RefSeq Acc Id: XM_039098500   ⟹   XP_038954428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,788,829 - 4,818,492 (-)NCBI
mRatBN7.2204,786,932 - 4,809,855 (-)NCBI
RefSeq Acc Id: XM_063279020   ⟹   XP_063135090
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,809,655 - 4,818,492 (-)NCBI
RefSeq Acc Id: XR_005497184
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8204,795,645 - 4,818,492 (-)NCBI
mRatBN7.2204,793,352 - 4,816,598 (-)NCBI
RefSeq Acc Id: NP_997693   ⟸   NM_212528
- Peptide Label: isoform 2 precursor
- UniProtKB: A6JJF6 (UniProtKB/TrEMBL),   Q6MGB2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255991   ⟸   XM_006255929
- Peptide Label: isoform X9
- UniProtKB: A6JJF6 (UniProtKB/TrEMBL),   F6T0B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457069   ⟸   XM_017601580
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZM36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457071   ⟸   XM_017601582
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZR92 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457074   ⟸   XM_017601585
- Peptide Label: isoform X8
- UniProtKB: A6JJF6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457070   ⟸   XM_017601581
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZM36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457072   ⟸   XM_017601583
- Peptide Label: isoform X6
- UniProtKB: A0A8I5ZR92 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457073   ⟸   XM_017601584
- Peptide Label: isoform X7
- UniProtKB: A0A8I6A1U6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000048846   ⟸   ENSRNOT00000045533
Ensembl Acc Id: ENSRNOP00000073041   ⟸   ENSRNOT00000085547
Ensembl Acc Id: ENSRNOP00000071327   ⟸   ENSRNOT00000084117
RefSeq Acc Id: XP_038954427   ⟸   XM_039098499
- Peptide Label: isoform X2
- UniProtKB: A0A8I5ZM36 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954428   ⟸   XM_039098500
- Peptide Label: isoform X5
- UniProtKB: A0A8I5ZM36 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000080979   ⟸   ENSRNOT00000115128
Ensembl Acc Id: ENSRNOP00000082947   ⟸   ENSRNOT00000107648
Ensembl Acc Id: ENSRNOP00000086235   ⟸   ENSRNOT00000120229
Ensembl Acc Id: ENSRNOP00000097357   ⟸   ENSRNOT00000112730
Ensembl Acc Id: ENSRNOP00000079082   ⟸   ENSRNOT00000104091
RefSeq Acc Id: NP_001388231   ⟸   NM_001401302
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A0G2K069 (UniProtKB/TrEMBL),   A0A8I5ZM36 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063135090   ⟸   XM_063279020
- Peptide Label: isoform X10
Protein Domains
Fibrillar collagen NC1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F6T0B3-F1-model_v2 AlphaFold F6T0B3 1-1650 view protein structure

Transcriptome

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

Promoters
RGD ID:13701321
Promoter ID:EPDNEW_R11842
Type:single initiation site
Name:Col11a2_1
Description:collagen type XI 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_6.0203,830,199 - 3,830,259EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2373 AgrOrtholog
BioCyc Gene G2FUF-4544 BioCyc
Ensembl Genes ENSRNOG00000000463 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000061939 Ensembl
Ensembl Transcript ENSRNOT00000045533.4 UniProtKB/TrEMBL
  ENSRNOT00000084117.2 UniProtKB/TrEMBL
  ENSRNOT00000085547.2 UniProtKB/TrEMBL
  ENSRNOT00000092329.2 UniProtKB/TrEMBL
  ENSRNOT00000104091.1 UniProtKB/TrEMBL
  ENSRNOT00000107648.1 UniProtKB/TrEMBL
  ENSRNOT00000112730.1 UniProtKB/TrEMBL
  ENSRNOT00000115128.1 UniProtKB/TrEMBL
  ENSRNOT00000120229.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.1000 UniProtKB/TrEMBL
  2.60.120.200 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  Collagen_superfamily UniProtKB/TrEMBL
  ConA-like_subgrp UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
  TSPN-like_N UniProtKB/TrEMBL
NCBI Gene Col11a2 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  COLLAGEN ALPHA-1(X) CHAIN UniProtKB/TrEMBL
  COLLAGEN ALPHA-2(XI) CHAIN UniProtKB/TrEMBL
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/TrEMBL
PhenoGen Col11a2 PhenoGen
PROSITE NC1_FIB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000463 RatGTEx
  ENSRNOG00000061939 RatGTEx
SMART COLFI UniProtKB/TrEMBL
  LamG UniProtKB/TrEMBL
  TSPN UniProtKB/TrEMBL
Superfamily-SCOP ConA_like_lec_gl UniProtKB/TrEMBL
UniProt A0A0G2K069 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZM36 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZR92 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZY93_RAT UniProtKB/TrEMBL
  A0A8I6A1U6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A830_RAT UniProtKB/TrEMBL
  A0A8I6AUU9_RAT UniProtKB/TrEMBL
  A6JJF6 ENTREZGENE, UniProtKB/TrEMBL
  F6T0B3 ENTREZGENE, UniProtKB/TrEMBL
  Q6MGB2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Col11a2  collagen type XI alpha 2 chain  LOC100911886  collagen alpha-2(XI) chain-like  Data merged from RGD:6490199 737654 PROVISIONAL
2016-07-27 Col11a2  collagen type XI alpha 2 chain  Col11a2  collagen, type XI, alpha 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100911886  collagen alpha-2(XI) chain-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-25 Col11a2  collagen, type XI, alpha 2  Col11a2  procollagen, type XI, alpha 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-03-29 Col11a2  procollagen, type XI, alpha 2  Col11a2_mapped  procollagen, type XI, alpha 2 (mapped)  Symbol and Name updated 1299863 APPROVED
2007-03-29 Col11a2_mapped  procollagen, type XI, alpha 2 (mapped)  Col11a2_retired  procollagen, type XI, alpha 2 (mapped)  Data merged from RGD:1593281 737654 APPROVED
2007-03-29 Col11a2_retired    Col11a2  procollagen, type XI, alpha 2 (mapped)  Symbol updated 1299863 PROVISIONAL
2006-11-20 Col11a2  procollagen, type XI, alpha 2 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Col11a2_mapped  procollagen, type XI, alpha 2 (mapped)  Col11a2  procollagen, type XI, alpha 2  Symbol and Name updated 1556543 APPROVED
2002-11-06 Col11a2  procollagen, type XI, alpha 2    Type XI collagen, alpha2 chain  Name updated 625702 APPROVED
2002-06-10 Col11a2  Type XI collagen, alpha2 chain      Symbol and Name status set to approved 70586 APPROVED