CXCL13 (C-X-C motif chemokine ligand 13) - Rat Genome Database

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Gene: CXCL13 (C-X-C motif chemokine ligand 13) Canis lupus familiaris
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Symbol: CXCL13
Name: C-X-C motif chemokine ligand 13
RGD ID: 12191236
Description: ENCODES a protein that exhibits CCR10 chemokine receptor binding (inferred); chemokine activity (inferred); CXCR3 chemokine receptor binding (inferred); INVOLVED IN activation of GTPase activity (ortholog); B cell chemotaxis across high endothelial venule (ortholog); lymph node development (ortholog); ASSOCIATED WITH endometriosis (ortholog); Experimental Liver Cirrhosis (ortholog); malignant mesothelioma (ortholog); FOUND IN extracellular region (inferred); extracellular space (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: C-X-C motif chemokine 13; chemokine (C-X-C motif) ligand 13 (B-cell chemoattractant)
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1322,047,277 - 2,053,277 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl322,047,315 - 2,052,833 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3239,837,784 - 39,843,805 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0322,073,585 - 2,079,610 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl322,073,621 - 2,081,627 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1322,071,444 - 2,077,479 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0322,019,776 - 2,025,803 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03238,148,529 - 38,154,567 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CXCL13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1322,047,277 - 2,053,277 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl322,047,315 - 2,052,833 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3239,837,784 - 39,843,805 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0322,073,585 - 2,079,610 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl322,073,621 - 2,081,627 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1322,071,444 - 2,077,479 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0322,019,776 - 2,025,803 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03238,148,529 - 38,154,567 (-)NCBIUU_Cfam_GSD_1.0
CXCL13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38477,511,753 - 77,611,834 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl477,511,753 - 77,611,834 (+)EnsemblGRCh38hg38GRCh38
GRCh37478,432,907 - 78,532,988 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36478,651,931 - 78,752,010 (+)NCBINCBI36Build 36hg18NCBI36
Build 34478,790,084 - 78,890,165NCBI
Celera475,734,287 - 75,834,362 (+)NCBICelera
Cytogenetic Map4q21.1NCBI
HuRef474,184,783 - 74,284,964 (+)NCBIHuRef
CHM1_1478,409,854 - 78,509,941 (+)NCBICHM1_1
T2T-CHM13v2.0480,852,591 - 80,952,672 (+)NCBIT2T-CHM13v2.0
Cxcl13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39596,104,785 - 96,108,927 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl596,104,810 - 96,108,927 (+)EnsemblGRCm39 Ensembl
GRCm38595,956,939 - 95,961,068 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl595,956,951 - 95,961,068 (+)EnsemblGRCm38mm10GRCm38
MGSCv37596,385,958 - 96,390,087 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36596,197,241 - 96,201,370 (+)NCBIMGSCv36mm8
Celera593,306,539 - 93,310,668 (+)NCBICelera
Cytogenetic Map5E3NCBI
cM Map547.29NCBI
Cxcl13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81413,912,858 - 13,917,920 (-)NCBIGRCr8
mRatBN7.21413,608,894 - 13,613,965 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1413,608,902 - 13,613,933 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1413,576,171 - 13,581,214 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01414,876,016 - 14,881,059 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01413,592,498 - 13,597,541 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01415,253,146 - 15,258,221 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1415,253,125 - 15,258,207 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01415,193,472 - 15,198,546 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41415,126,332 - 15,131,368 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1413,649,303 - 13,654,347 (-)NCBICelera
Cytogenetic Map14p22NCBI
Cxcl13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554332,123,190 - 2,129,119 (+)NCBIChiLan1.0ChiLan1.0
CXCL13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2352,453,375 - 52,460,491 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1452,639,881 - 52,646,923 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0446,583,759 - 46,589,865 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1452,428,702 - 52,434,803 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl452,428,702 - 52,434,803 (-)Ensemblpanpan1.1panPan2
Cxcl13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528510,191,903 - 10,197,633 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366761,309,625 - 1,313,933 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366761,309,625 - 1,314,532 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CXCL13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1873,071,261 - 73,077,342 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2877,268,254 - 77,274,314 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CXCL13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1726,101,489 - 26,108,430 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl726,102,714 - 26,108,690 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660374,454,575 - 4,460,831 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cxcl13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475713,488,670 - 13,494,837 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475713,488,787 - 13,494,831 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CXCL13
101 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000038842   ⟹   ENSCAFP00000034611
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl322,047,315 - 2,052,833 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845027573   ⟹   ENSCAFP00845021696
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl322,073,621 - 2,081,627 (+)Ensembl
RefSeq Acc Id: XM_038443903   ⟹   XP_038299831
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0322,073,585 - 2,079,610 (+)NCBI
RefSeq Acc Id: XM_038518308   ⟹   XP_038374236
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1322,071,444 - 2,077,479 (+)NCBI
RefSeq Acc Id: XM_038582355   ⟹   XP_038438283
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03238,148,529 - 38,154,567 (-)NCBI
RefSeq Acc Id: XM_038646233   ⟹   XP_038502161
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0322,019,776 - 2,025,803 (+)NCBI
RefSeq Acc Id: XM_845089   ⟹   XP_850182
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1322,047,277 - 2,053,277 (+)NCBI
Dog10K_Boxer_Tasha3239,837,784 - 39,843,805 (-)NCBI
Sequence:
RefSeq Acc Id: XP_850182   ⟸   XM_845089
- UniProtKB: A0A8C0T5A2 (UniProtKB/TrEMBL),   A0A8I3NMN5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00000034611   ⟸   ENSCAFT00000038842
RefSeq Acc Id: XP_038374236   ⟸   XM_038518308
RefSeq Acc Id: XP_038502161   ⟸   XM_038646233
RefSeq Acc Id: XP_038299831   ⟸   XM_038443903
- UniProtKB: A0A8C0T5A2 (UniProtKB/TrEMBL),   A0A8I3NMN5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038438283   ⟸   XM_038582355
- UniProtKB: A0A8C0T5A2 (UniProtKB/TrEMBL),   A0A8I3NMN5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845021696   ⟸   ENSCAFT00845027573
Promoters
RGD ID:13688685
Promoter ID:EPDNEW_C6753
Type:single initiation site
Name:CXCL13_1
Description:C-X-C motif chemokine ligand 13
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1322,047,293 - 2,047,353EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000008692 Ensembl
  ENSCAFG00000055855 UniProtKB/TrEMBL
  ENSCAFG00030019948 UniProtKB/TrEMBL
  ENSCAFG00040018992 UniProtKB/TrEMBL
  ENSCAFG00845015471 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000108181.1 UniProtKB/TrEMBL
  ENSCAFT00030036668.1 UniProtKB/TrEMBL
  ENSCAFT00040035101.1 UniProtKB/TrEMBL
  ENSCAFT00845027573 ENTREZGENE
  ENSCAFT00845027573.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro Chemokine_b/g/d UniProtKB/TrEMBL
  Chemokine_CXC UniProtKB/TrEMBL
  Chemokine_CXC_CS UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/TrEMBL
  CXC_Chemokine_domain UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/TrEMBL
KEGG Report cfa:608156 UniProtKB/TrEMBL
NCBI Gene CXCL13 ENTREZGENE
PANTHER C-X-C MOTIF CHEMOKINE 13 UniProtKB/TrEMBL
  SMALL INDUCIBLE CYTOKINE A UniProtKB/TrEMBL
Pfam IL8 UniProtKB/TrEMBL
PRINTS INTERLEUKIN8 UniProtKB/TrEMBL
  SMALLCYTKCXC UniProtKB/TrEMBL
PROSITE SMALL_CYTOKINES_CXC UniProtKB/TrEMBL
SMART SCY UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/TrEMBL
UniProt A0A8C0T5A2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NMN5 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:39747 ENTREZGENE