CXCL12 (C-X-C motif chemokine ligand 12) - Rat Genome Database

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Gene: CXCL12 (C-X-C motif chemokine ligand 12) Pan paniscus
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Symbol: CXCL12
Name: C-X-C motif chemokine ligand 12
RGD ID: 12000451
Description: ENCODES a protein that exhibits chemokine receptor binding (ortholog); CXCR chemokine receptor binding (ortholog); integrin binding (ortholog); INVOLVED IN adult locomotory behavior (ortholog); ameboidal-type cell migration (ortholog); animal organ regeneration (ortholog); PARTICIPATES IN hypoxia inducible factor pathway; syndecan signaling pathway; ASSOCIATED WITH anti-basement membrane glomerulonephritis (ortholog); brain ischemia (ortholog); breast carcinoma (ortholog); FOUND IN external side of plasma membrane (ortholog); extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: stromal cell-derived factor 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2857,109,201 - 57,125,606 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11057,114,523 - 57,132,612 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01041,296,975 - 41,384,864 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11044,476,962 - 44,564,231 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1044,552,480 - 44,564,231 (-)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adult locomotory behavior  (ISO)
ameboidal-type cell migration  (ISO)
animal organ regeneration  (ISO)
antimicrobial humoral immune response mediated by antimicrobial peptide  (ISO)
blood vessel endothelial cell migration  (ISO)
brain development  (ISO)
branching involved in blood vessel morphogenesis  (ISO)
cell chemotaxis  (IEA)
cell-cell adhesion  (ISO)
cellular response to chemokine  (ISO)
chemokine (C-X-C motif) ligand 12 signaling pathway  (ISO)
chemokine-mediated signaling pathway  (ISO)
chemotaxis  (IEA)
CXCL12-activated CXCR4 signaling pathway  (ISO)
defense response  (IEA)
detection of mechanical stimulus involved in sensory perception of pain  (ISO)
detection of temperature stimulus involved in sensory perception of pain  (ISO)
dopaminergic neuron differentiation  (ISO)
germ cell development  (ISO)
germ cell migration  (ISO)
immune response  (IEA)
induction of positive chemotaxis  (ISO)
integrin activation  (ISO)
motor neuron axon guidance  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of dendritic cell apoptotic process  (ISO)
negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage  (ISO)
negative regulation of leukocyte tethering or rolling  (ISO)
neuron migration  (ISO)
positive regulation of axon extension involved in axon guidance  (ISO)
positive regulation of calcium ion import  (ISO)
positive regulation of cell adhesion  (ISO)
positive regulation of cell migration  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of chemotaxis  (ISO)
positive regulation of dopamine secretion  (ISO)
positive regulation of endothelial cell proliferation  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of monocyte chemotaxis  (ISO)
positive regulation of myoblast fusion  (ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (ISO)
positive regulation of T cell migration  (ISO)
positive regulation of vasculature development  (ISO)
regulation of calcium ion transport  (ISO)
regulation of cell migration  (ISO)
response to hypoxia  (ISO)
response to mechanical stimulus  (ISO)
response to peptide hormone  (ISO)
response to ultrasound  (ISO)
signal transduction  (IEA)
T cell chemotaxis  (ISO)
T cell proliferation  (ISO)
telencephalon cell migration  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CXCL12
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2857,109,201 - 57,125,606 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11057,114,523 - 57,132,612 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01041,296,975 - 41,384,864 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11044,476,962 - 44,564,231 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1044,552,480 - 44,564,231 (-)Ensemblpanpan1.1panPan2
CXCL12
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381044,370,165 - 44,385,097 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1044,370,165 - 44,386,493 (-)EnsemblGRCh38hg38GRCh38
GRCh371044,865,613 - 44,880,545 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361044,185,611 - 44,200,548 (-)NCBINCBI36Build 36hg18NCBI36
Build 341044,192,516 - 44,200,551NCBI
Celera1040,869,153 - 40,884,099 (-)NCBICelera
Cytogenetic Map10q11.21NCBI
HuRef1041,391,945 - 41,406,899 (-)NCBIHuRef
CHM1_11044,904,782 - 44,919,728 (-)NCBICHM1_1
T2T-CHM13v2.01045,251,013 - 45,265,954 (-)NCBIT2T-CHM13v2.0
Cxcl12
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396117,145,496 - 117,158,329 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6117,145,496 - 117,158,328 (+)EnsemblGRCm39 Ensembl
GRCm386117,168,535 - 117,181,368 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6117,168,535 - 117,181,367 (+)EnsemblGRCm38mm10GRCm38
MGSCv376117,118,553 - 117,131,386 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366117,134,182 - 117,146,986 (+)NCBIMGSCv36mm8
Celera6118,991,272 - 119,004,105 (+)NCBICelera
Cytogenetic Map6F1NCBI
cM Map654.81NCBI
Cxcl12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84152,060,781 - 152,073,628 (+)NCBIGRCr8
mRatBN7.24150,388,326 - 150,401,173 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4150,388,325 - 150,401,168 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4156,650,651 - 156,663,492 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04152,434,709 - 152,447,550 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04151,057,585 - 151,070,426 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04149,261,044 - 149,273,891 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4149,261,044 - 149,273,891 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04215,195,689 - 215,208,536 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44153,503,576 - 153,516,423 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14153,748,473 - 153,755,186 (+)NCBI
Celera4139,267,343 - 139,280,188 (+)NCBICelera
Cytogenetic Map4q42NCBI
Cxcl12
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555461,929,269 - 1,941,690 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555461,929,269 - 1,941,690 (-)NCBIChiLan1.0ChiLan1.0
CXCL12
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1282,895,916 - 2,903,543 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha283,126,200 - 3,137,772 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0283,070,799 - 3,082,409 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl283,070,793 - 3,099,455 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1282,868,050 - 2,879,621 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0282,906,153 - 2,917,718 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0283,043,671 - 3,055,243 (+)NCBIUU_Cfam_GSD_1.0
Cxcl12
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721382,545,003 - 82,559,854 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366174,224,131 - 4,238,796 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366174,224,131 - 4,239,080 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CXCL12
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1491,516,431 - 91,552,752 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11491,516,383 - 91,543,857 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21499,990,204 - 100,017,171 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CXCL12
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1940,005,580 - 40,020,513 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl940,011,439 - 40,020,494 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605646,393,964 - 46,408,906 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cxcl12
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249221,261,228 - 1,273,758 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249221,261,228 - 1,273,755 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Sequence


Ensembl Acc Id: ENSPPAT00000058966   ⟹   ENSPPAP00000036076
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl1044,552,480 - 44,564,231 (-)Ensembl
RefSeq Acc Id: XM_003816744   ⟹   XP_003816792
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2857,109,201 - 57,125,606 (-)NCBI
NHGRI_mPanPan11057,114,523 - 57,130,880 (-)NCBI
Mhudiblu_PPA_v01041,371,585 - 41,384,143 (-)NCBI
PanPan1.11044,549,318 - 44,564,231 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003816745   ⟹   XP_003816793
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2857,116,749 - 57,124,170 (-)NCBI
NHGRI_mPanPan11057,121,420 - 57,130,877 (-)NCBI
Mhudiblu_PPA_v01041,376,111 - 41,384,143 (-)NCBI
PanPan1.11044,556,203 - 44,564,231 (-)NCBI
Sequence:
RefSeq Acc Id: XM_003816746   ⟹   XP_003816794
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2857,109,201 - 57,124,187 (-)NCBI
NHGRI_mPanPan11057,114,523 - 57,130,883 (-)NCBI
Mhudiblu_PPA_v01041,372,390 - 41,384,145 (-)NCBI
PanPan1.11044,552,480 - 44,564,231 (-)NCBI
Sequence:
RefSeq Acc Id: XM_034930387   ⟹   XP_034786278
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2857,109,201 - 57,125,606 (-)NCBI
NHGRI_mPanPan11057,114,529 - 57,132,612 (-)NCBI
Mhudiblu_PPA_v01041,371,585 - 41,384,864 (-)NCBI
Protein Sequences
Protein RefSeqs XP_003816792 (Get FASTA)   NCBI Sequence Viewer  
  XP_003816793 (Get FASTA)   NCBI Sequence Viewer  
  XP_003816794 (Get FASTA)   NCBI Sequence Viewer  
  XP_034786278 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000036076.1
RefSeq Acc Id: XP_003816792   ⟸   XM_003816744
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_003816794   ⟸   XM_003816746
- Peptide Label: isoform X1
- UniProtKB: A0A2R9C2C3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003816793   ⟸   XM_003816745
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_034786278   ⟸   XM_034930387
- Peptide Label: isoform X4
Ensembl Acc Id: ENSPPAP00000036076   ⟸   ENSPPAT00000058966
Protein Domains
Chemokine interleukin-8-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000040825 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000058966.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro Chemokine_b/g/d UniProtKB/TrEMBL
  Chemokine_IL8-like_dom UniProtKB/TrEMBL
  CXC_Chemokine_domain UniProtKB/TrEMBL
  Interleukin_8-like_sf UniProtKB/TrEMBL
NCBI Gene CXCL12 ENTREZGENE
PANTHER SMALL INDUCIBLE CYTOKINE A UniProtKB/TrEMBL
  STROMAL CELL-DERIVED FACTOR 1 UniProtKB/TrEMBL
Pfam IL8 UniProtKB/TrEMBL
PRINTS INTERLEUKIN8 UniProtKB/TrEMBL
SMART SCY UniProtKB/TrEMBL
Superfamily-SCOP SSF54117 UniProtKB/TrEMBL
UniProt A0A2R9C2C3 ENTREZGENE, UniProtKB/TrEMBL