COL23A1 (collagen type XXIII alpha 1 chain) - Rat Genome Database

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Gene: COL23A1 (collagen type XXIII alpha 1 chain) Pan paniscus
Analyze
Symbol: COL23A1
Name: collagen type XXIII alpha 1 chain
RGD ID: 11921164
Description: ENCODES a protein that exhibits heparin binding (ortholog); identical protein binding (ortholog); ASSOCIATED WITH Ehlers-Danlos syndrome dermatosparaxis type (ortholog); Ehlers-Danlos syndrome spondylodysplastic type 2 (ortholog); Familial Prostate Cancer (ortholog); FOUND IN cell surface (ortholog); extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: collagen alpha-1(XXIII) chain
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24173,181,432 - 173,532,597 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15171,320,971 - 171,672,135 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05173,399,146 - 173,750,380 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15180,656,354 - 181,005,593 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5180,657,408 - 181,005,593 (-)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
COL23A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24173,181,432 - 173,532,597 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15171,320,971 - 171,672,135 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05173,399,146 - 173,750,380 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15180,656,354 - 181,005,593 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5180,657,408 - 181,005,593 (-)Ensemblpanpan1.1panPan2
COL23A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385178,237,618 - 178,590,393 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5178,237,476 - 178,590,393 (-)EnsemblGRCh38hg38GRCh38
GRCh375177,664,619 - 178,017,394 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365177,597,225 - 177,950,162 (-)NCBINCBI36Build 36hg18NCBI36
Build 345177,597,224 - 177,950,162NCBI
Celera5173,291,605 - 173,645,012 (-)NCBICelera
Cytogenetic Map5q35.3NCBI
HuRef5172,390,905 - 172,744,666 (-)NCBIHuRef
CHM1_15177,097,054 - 177,449,928 (-)NCBICHM1_1
T2T-CHM13v2.05178,787,901 - 179,142,365 (-)NCBIT2T-CHM13v2.0
Col23a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391151,180,508 - 51,474,752 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1151,180,747 - 51,474,745 (+)EnsemblGRCm39 Ensembl
GRCm381151,289,679 - 51,583,925 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1151,289,920 - 51,583,918 (+)EnsemblGRCm38mm10GRCm38
MGSCv371151,103,422 - 51,397,427 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361151,133,343 - 51,424,533 (+)NCBIMGSCv36mm8
Celera1155,849,978 - 56,155,255 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1131.03NCBI
Col23a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81036,050,327 - 36,337,279 (+)NCBIGRCr8
mRatBN7.21035,549,090 - 35,839,152 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1035,549,113 - 35,836,314 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1040,243,212 - 40,530,811 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01039,733,527 - 40,021,103 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01035,236,908 - 35,524,510 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01034,846,618 - 34,934,991 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1034,903,343 - 34,933,539 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01036,512,405 - 36,803,482 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41036,808,661 - 37,096,560 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11036,809,709 - 37,097,609 (+)NCBI
Celera1034,905,532 - 35,193,058 (+)NCBICelera
Cytogenetic Map10q22NCBI
Col23a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554081,778,061 - 2,033,526 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554081,771,547 - 2,034,458 (+)NCBIChiLan1.0ChiLan1.0
COL23A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1112,997,504 - 3,319,948 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl112,997,021 - 3,318,867 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha113,141,463 - 3,463,457 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0112,973,885 - 3,296,143 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl112,972,436 - 3,296,159 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1112,944,551 - 3,266,583 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0113,025,787 - 3,347,870 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0113,264,415 - 3,586,474 (+)NCBIUU_Cfam_GSD_1.0
Col23a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213113,090,774 - 113,453,867 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493664794,258 - 452,849 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493664793,536 - 456,623 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL23A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl279,766,150 - 80,141,293 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1279,766,260 - 80,141,296 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2281,381,287 - 81,748,685 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL23A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12379,932,340 - 80,279,808 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607511,231,036 - 11,591,628 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col23a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473341,426,748 - 41,700,873 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_008970618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961129 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961130 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_034961132 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_055113075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004671766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004671767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JARIFH020000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSPPAT00000060330   ⟹   ENSPPAP00000037430
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl5180,657,408 - 181,005,593 (-)Ensembl
RefSeq Acc Id: XM_034961132   ⟹   XP_034817023
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24173,181,432 - 173,532,597 (-)NCBI
NHGRI_mPanPan15171,320,971 - 171,672,135 (-)NCBI
Mhudiblu_PPA_v05173,399,146 - 173,750,380 (-)NCBI
RefSeq Acc Id: XM_055113075   ⟹   XP_054969050
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24173,183,859 - 173,209,322 (-)NCBI
NHGRI_mPanPan15171,323,330 - 171,348,861 (-)NCBI
Protein Sequences
Protein RefSeqs XP_034817023 (Get FASTA)   NCBI Sequence Viewer  
  XP_054969050 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000037430.1
Reference Protein Sequences
RefSeq Acc Id: XP_034817023   ⟸   XM_034961132
- Peptide Label: isoform X2
- UniProtKB: A0A2R9C687 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSPPAP00000037430   ⟸   ENSPPAT00000060330
RefSeq Acc Id: XP_054969050   ⟸   XM_055113075
- Peptide Label: isoform X1


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000041470 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000060330.1 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
NCBI Gene COL23A1 ENTREZGENE
PANTHER PTHR37456:SF5 UniProtKB/TrEMBL
  SI:CH211-266K2.1 UniProtKB/TrEMBL
Pfam Collagen UniProtKB/TrEMBL
UniProt A0A2R9C687 ENTREZGENE, UniProtKB/TrEMBL