Col18a1 (collagen type XVIII alpha 1 chain) - Rat Genome Database

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Gene: Col18a1 (collagen type XVIII alpha 1 chain) Heterocephalus glaber
Analyze
Symbol: Col18a1
Name: collagen type XVIII alpha 1 chain
RGD ID: 18926506
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN angiogenesis (ortholog); blood vessel endothelial cell migration (ortholog); endothelial cell apoptotic process (ortholog); PARTICIPATES IN forkhead class A signaling pathway; ASSOCIATED WITH angiosarcoma (ortholog); angle-closure glaucoma (ortholog); autistic disorder (ortholog); FOUND IN basement membrane (ortholog); extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Collagen alpha-1(XVIII) chain
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474530,754,820 - 30,791,426 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474530,754,654 - 30,792,352 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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
Additional References at PubMed
PMID:21993625   PMID:22301074  


Genomics

Comparative Map Data
Col18a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474530,754,820 - 30,791,426 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474530,754,654 - 30,792,352 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
COL18A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382145,405,165 - 45,513,720 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2145,405,165 - 45,513,720 (+)EnsemblGRCh38hg38GRCh38
GRCh372146,825,080 - 46,933,634 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362145,649,525 - 45,758,062 (+)NCBINCBI36Build 36hg18NCBI36
Build 342145,649,524 - 45,758,061NCBI
Celera2131,935,820 - 32,044,503 (+)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2132,201,756 - 32,310,095 (+)NCBIHuRef
CHM1_12146,385,935 - 46,494,464 (+)NCBICHM1_1
T2T-CHM13v2.02143,770,922 - 43,881,831 (+)NCBIT2T-CHM13v2.0
Col18a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391076,888,013 - 77,002,351 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1076,888,012 - 77,002,382 (-)EnsemblGRCm39 Ensembl
GRCm381077,052,178 - 77,166,530 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1077,052,178 - 77,166,548 (-)EnsemblGRCm38mm10GRCm38
MGSCv371076,514,924 - 76,629,275 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361076,495,895 - 76,610,217 (-)NCBIMGSCv36mm8
Celera1078,096,179 - 78,210,613 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Col18a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82011,473,645 - 11,582,111 (+)NCBIGRCr8
mRatBN7.22011,474,104 - 11,582,593 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2011,474,104 - 11,582,593 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2012,170,630 - 12,278,993 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02011,531,618 - 11,639,977 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,003,376 - 12,111,737 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,225,202 - 12,332,858 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,225,202 - 12,332,858 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02014,388,743 - 14,495,241 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42011,920,816 - 11,982,468 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12011,979,239 - 11,981,856 (+)NCBI
Celera2012,974,396 - 13,081,322 (+)NCBICelera
Cytogenetic Map20p12NCBI
Col18a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540742,091,211 - 42,131,343 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540742,091,211 - 42,131,343 (+)NCBIChiLan1.0ChiLan1.0
COL18A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22241,474,960 - 41,590,499 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12136,343,211 - 36,459,037 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02131,720,358 - 31,834,470 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12145,046,791 - 45,106,225 (+)NCBIpanpan1.1PanPan1.1panPan2
COL18A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13138,915,872 - 38,957,484 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3138,143,980 - 38,184,998 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03138,552,331 - 38,593,457 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3138,519,589 - 38,593,442 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13138,415,729 - 38,457,167 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03138,375,432 - 38,416,875 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03138,893,993 - 38,935,752 (+)NCBIUU_Cfam_GSD_1.0
Col18a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497138,186,994 - 38,282,739 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936778847,473 - 943,038 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL18A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13207,940,948 - 207,982,938 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113207,907,835 - 207,984,082 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213218,076,734 - 218,090,016 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL18A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,129,674 - 89,186,490 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605417,263,431 - 17,447,521 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000025947   ⟹   ENSHGLP00000025719
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474530,754,820 - 30,791,426 (+)Ensembl
RefSeq Acc Id: XM_021256406   ⟹   XP_021112065
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474530,754,654 - 30,792,352 (+)NCBI
Protein Sequences
Protein RefSeqs XP_021112065 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHB00265 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000025719
Reference Protein Sequences
RefSeq Acc Id: XP_021112065   ⟸   XM_021256406
RefSeq Acc Id: ENSHGLP00000025719   ⟸   ENSHGLT00000025947


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000018308 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000025947 ENTREZGENE
NCBI Gene Col18a1 ENTREZGENE