Col11a1 (collagen type XI alpha 1 chain) - Rat Genome Database

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Gene: Col11a1 (collagen type XI alpha 1 chain) Ictidomys tridecemlineatus
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Symbol: Col11a1
Name: collagen type XI alpha 1 chain
RGD ID: 12663747
Description: ENCODES a protein that exhibits heparan sulfate binding (ortholog); heparin binding (ortholog); INVOLVED IN cartilage condensation (ortholog); cartilage development (ortholog); chondrocyte development (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH abdominal aortic aneurysm (ortholog); angle-closure glaucoma (ortholog); Autosomal Dominant Nonsyndromic Deafness 37 (ortholog); FOUND IN collagen trimer (ortholog); collagen type XI trimer (ortholog); collagen-containing extracellular matrix (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: collagen alpha-1(XI) chain
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058112,882,302 - 113,096,413 (-)NCBI
SpeTri2.0NW_004936730466,912 - 680,823 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
Col11a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405058112,882,302 - 113,096,413 (-)NCBI
SpeTri2.0NW_004936730466,912 - 680,823 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL11A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1102,876,467 - 103,108,872 (-)EnsemblGRCh38hg38GRCh38
GRCh381102,876,473 - 103,108,580 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371103,342,029 - 103,574,078 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361103,114,611 - 103,346,640 (-)NCBINCBI36hg18NCBI36
Build 341103,055,015 - 103,286,073NCBI
Celera1101,611,302 - 101,843,503 (-)NCBI
Cytogenetic Map1p21.1NCBI
HuRef1101,474,202 - 101,706,091 (-)NCBIHuRef
CHM1_11103,456,836 - 103,688,896 (-)NCBICHM1_1
Col11a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393113,823,933 - 114,014,405 (+)NCBIGRCm39mm39
GRCm39 Ensembl3113,824,189 - 114,014,367 (+)Ensembl
GRCm383114,030,479 - 114,220,756 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3114,030,540 - 114,220,718 (+)EnsemblGRCm38mm10GRCm38
MGSCv373113,733,458 - 113,923,244 (+)NCBIGRCm37mm9NCBIm37
MGSCv363114,022,729 - 114,212,291 (+)NCBImm8
Celera3120,412,886 - 120,608,803 (+)NCBICelera
Cytogenetic Map3F3NCBI
cM Map349.35NCBI
Col11a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22201,820,715 - 202,013,853 (+)NCBI
Rnor_6.0 Ensembl2216,863,428 - 217,056,523 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02216,863,423 - 217,056,523 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02234,955,150 - 235,148,754 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42209,996,467 - 210,193,379 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12210,124,200 - 210,156,132 (+)NCBI
Celera2194,360,332 - 194,556,704 (+)NCBICelera
Cytogenetic Map2q41NCBI
Col11a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554357,352,617 - 7,545,235 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554357,352,617 - 7,545,235 (-)NCBIChiLan1.0ChiLan1.0
COL11A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11104,248,931 - 104,481,259 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1104,249,891 - 104,481,259 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01105,538,215 - 105,769,973 (-)NCBIMhudiblu_PPA_v0panPan3
COL11A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1647,425,387 - 47,622,189 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl647,425,307 - 47,621,012 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha650,216,773 - 50,413,293 (+)NCBI
ROS_Cfam_1.0647,763,689 - 47,960,683 (+)NCBI
UMICH_Zoey_3.1647,451,643 - 47,648,400 (+)NCBI
UNSW_CanFamBas_1.0647,426,299 - 47,623,012 (+)NCBI
UU_Cfam_GSD_1.0647,863,598 - 48,060,623 (+)NCBI
COL11A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4115,540,950 - 115,840,708 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14115,638,381 - 115,841,679 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24127,267,387 - 127,409,238 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL11A1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12030,284,471 - 30,508,660 (+)NCBI
ChlSab1.1 Ensembl2030,284,447 - 30,508,658 (+)Ensembl
Col11a1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248575,817,472 - 6,176,421 (-)NCBI


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_021735804   ⟹   XP_021591479
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0NW_004936730466,912 - 680,823 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040289212   ⟹   XP_040145146
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405058112,882,302 - 113,096,413 (-)NCBI
Protein Sequences
Protein RefSeqs XP_040145146 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_021591479   ⟸   XM_021735804
- Sequence:
RefSeq Acc Id: XP_040145146   ⟸   XM_040289212
Protein Domains
Fibrillar collagen NC1


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000004467 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000004057 UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000004520 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  ConA-like_dom_sf UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
NCBI Gene Col11a1 ENTREZGENE
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/TrEMBL
PROSITE NC1_FIB UniProtKB/TrEMBL
SMART COLFI UniProtKB/TrEMBL
  LamG UniProtKB/TrEMBL
  TSPN UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/TrEMBL
UniProt I3M4E5_ICTTR UniProtKB/TrEMBL