cxcl12 (cxcl12,cxcl12a,LOC107707253,LOC107673912,LOC106604225,LOC107588617,LOC107548639)


Basic Information

Item Value
gene id cxcl12
gene name cxcl12,cxcl12a,LOC107707253,LOC107673912,LOC106604225,LOC107588617,LOC107548639
gene type misc
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035921.1
NCBI id CM008324.1
chromosome length 46505145
location 18837344 ~ 18847028 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>TU295009
CACAGTGCGATCAGCGGATCTCCACACtaaacactcactctctcacgcGCTCTCTCACACGCACGCGCTACAGCATGGAGCTGAAAGCCGTCTTACTAGCAGCGCTCATCACGGTGGCCGTCTATGGGACTATTTCACACGCCAAGCCCATCAGTCTGGTTGAAAGATGCTGGTGTCGCTCAACAGTCAACACAGTCCCACAGAGGAACATCCGTGAGCTGAAGTTTGTCCACACGCCCAACTGCCCCTTCCAAGTCATTGCCAAGCTGAAGAACGCCAAAGAAGTGTGCATCAACCCTGAGACCAAATGGCTGCAGCAGTACCTAAAGAACGCCCTTGAAAAAATGAAGAAGGCCAAGCAACAGTCCAACTAAAAGACCCAGCTGGATGGCAAGCCAGTTTGTcagcccaccaccaccaccacagatatGTACCATATACTCCTCTGGCATGCTTGCTGACCCAGCACTTATCCTGCCGTAATTGCTTCCCTCTTCGCGACTCCGTGAGCAAATGGCACACCAAACTCTAATggtcaccaccatcaccaccagcagcaccacCTCTGCCACTGCAATATAGGCACCTCCTGTGTTAGCGCAATGTGCAATTATATATGTATGAGTGTGGTTTGTTTTTATACGTATGATATGTGTATATACAATGTTTTTATATCAATTTTAAACAGTAAAGAGATATTTTTGGAGTGGTGTTTGCTCCTTGCCTGTCTGTTACCGTGAGTTAGGCAGCAATGAATGAAGTATTTGAGTTAATTCGATTCGATTTGGGAGCAAACTCACATGAGGATCATGTTGCATCATAATAGTGACAgggagagaaatctgtaaatctgtgAATGATGTCCAGCAGTGCAGAGCTGAACCCAAATAGCAGCATATATCTGAGGAGCATGAGTACGAAGGGAATTGGCGTTTTGCCCCCTCCCCTATTTCATAAGCATATTAAGTAATGCAtatcttaaaaatatttaacactgcatattaatgcatgtGAGATTAATATTTTAAGAGGAACGTTGCTTGTGTTTAAGTTCTCTGATTAACAGggtgttactgtaaaaaaaaaaaaaaaaaggccgcAGACCTTAAATGACCCTGAATTACTTTAGGGAGCATAATTGGGTTTACTGGAAGTAGGCTGTGcggaaaaatagaaaagaatgtGCGTCGTTTTTATTTCTATCTTTCTGTAAGCAAAGAAACATCTGGATCCACAAAACTGCTAATTGAGCAGCTAGCGTGTTTAAGGCACATACAGAATTGGAGCACATGAAACATAAAAGACTGCGTACATGGTACCAAGCACAATgattaaaaaagaagaattatCATTAAACAACACAGAAGGATTTAAATGAAGCCTGTGAATTACCTACTATAGCTTACCAATTATATCATGAAATCTTTTTCTCATATTCAAAAAATGAATTACCTGCTGACCCACTATTAAGTATTGGATGGATTAACACCTGTACTACCTATTCACaattaatagtagtaataaataataataatgcactttattTATTGCATTCTGTGAACTAACCCAGCTGTGCTGAGGAATGCCGTCCGCAAATGTAGCGAAAAGCAAAAGTACAATTTTCCGCAGCCAGACAAGGTTAAAAGAAGCAAATACGACAATTAAGATAAAAGAATTTGATGTTAATTGAATTATTCTTGTGTATTTGCATCCACCATTAGCTTCTTCTTTCATGTAATGTATCtcatatgatattttttttgagTGAATGTGGGCAATGTTTAAAAGaggcacttaaaaatgacaactTTTAAATggaccttaaaaaaacacaaaaaaactaaaaatgccTTTCGGTCTGGCAGAGCCGTCTCCTGTTTACAGCAATCCTAGCCCTAAACAAAACATGTTGTGCCCTCCAAAACCAGCATGCATTCCCGTCTGCCAGAGCTAAACATTTCTCAAGAAAATTAGTCCGTGGAATTTGTCTGTTACAACACTGCCAATTTTATCCTATCAACAGATTTAATACGGTGCCATTAAAGCAGTCAGGCCTCTTTTACACAGGCTGCCTGCAGGCAACACAGGCCAGGAAAACATAATGCCCACTCAGGATTACTGACGAAGGGGGGTGCGCACATTGTTCTGGGGGTTAGGCCCCCAGTCACATCGAATCTCATACAGTCATGTGGAAAACTGCGAGAATCAAACTTAATGTGTGAACCCGTTAATTCTCGACTCATGCTTCTCTCTCACGCTGGCTAATTCTGCTTGCTTCAGAGGAGGTGTTTCAGAATGTCGATACAGGTTGAATAACTGTATGTGTAAAGGTAAAGACAGGAAAagagcttaaaaaaaacttgctttTTGACTGTTGACTCTACTAGCGGGCATTAACAATACACTACTCTTTTAGCACTATGTTCTGCAGTGATGTCTGAAATGGGTCAAATTATTAAGTATACAACATGCATACGGAATTACTGTTAATACTTGACTTGCTAGACATAAAAGGGACCAAGAGAAACACGAAAAGAACTGTTTTTGCAGGGTTTCTAAGATATATGAagattttatcattattttggttttatcaacattttgtccttttgcattttttaaataataaaaggtataaatatctaaatatatcatatcataatcTGCCAACACTGGTTTCCATACatagatatttttattggtcAGTTCATATCACCCAGCCTTTAAACTAGGATAAACTGAAGCTGTTTAAACTTGTACCCTTGCTTTCATTTCCTTGAAGTCTTAAGATTTGTCCACTGGCAACACTGACTTGTATCAGATTTTGCCAAaatttttgcattgtttgtactctgcctttattattattattcaattgTTCAATCCATCCCACCAATATGTGCTTCAGGCCACTGGTAATGTATATACCGTCCCCATTCCTCCCAAACAATGTGAAGACCATTTCTCTGTAGGTGGCAGCTTACttcatatatattgtatgtactTTTTTACGAGTTTGTActttatgtgtattttcattcatattttgaaataaatcaTCATATATGAATTTT
>XM_022684782.1
GTGCGCACACAGCGCCTCCACAGTGCGATCAGCGGATCTCCACACtaaacactcactctctcacgcGCTCTCTCACACGCACGCGCTACAGCATGGAGCTGAAAGCCGTCTTACTAGCAGCGCTCATCACGGTGGCCGTCTATGGGACTATTTCACACGCCAAGCCCATCAGTCTGGTTGAAAGATGCTGGTGTCGCTCAACAGTCAACACAGTCCCACAGAGGAACATCCGTGAGCTGAAGTTTGTCCACACGCCCAACTGCCCCTTCCAAGTCATTGCCAAGCTGAAGAACGCCAAAGAAGTGTGCATCAACCCTGAGACCAAATGGCTGCAGCAGTACCTAAAGAACGCCCTTGAAAAAATGAAGAAGGCCAAGCAACAGTCCAACTAAAAGACCCAGCTGGATGGCAAGCCAGTTTGTcagcccaccaccaccaccacagatatGTACCATATACTCCTCTGGCATGCTTGCTGACCCAGCACTTATCCTGCCGTAATTGCTTCCCTCTTCGCGACTCCGTGAGCAAATGGCACACCAAACTCTAATggtcaccaccatcaccaccagcagcaccacCTCTGCCACTGCAATATAGGCACCTCCTGTGTTAGCGCAATGTGCAATTATATATGTATGAGTGTGGTTTGTTTTTATACGTATGATATGTGTATATACAATGTTTTTATATCAATTTTAAACAGTAAAGAGATATTTTTGGAGTGGTGTTTGCTCCTTGCCTGTCTGTTACCGTGAGTTAGGCAGCAATGAATGAAGTATTTGAGTTAATTCGATTCGATTTGGGAGCAAACTCACATGAGGATCATGTTGCATCATAATAGTGACAgggagagaaatctgtaaatctgtgAATGATGTCCAGCAGTGCAGAGCTGAACCCAAATAGCAGCATATATCTGAGGAGCATGAGTACGAAGGGAATTGGCGTTTTGCCCCCTCCCCTATTTCATAAGCATATTAAGTAATGCAtatcttaaaaatatttaacactgcatattaatgcatgtGAGATTAATATTTTAAGAGGAACGTTGCTTGTGTTTAAGTTCTCTGATTAACAGggtgttactgtaaaaaaaaaaaaaaaaaggccgcAGACCTTAAATGACCCTGAATTACTTTAGGGAGCATAATTGGGTTTACTGGAAGTAGGCTGTGcggaaaaatagaaaagaatgtGCGTCGTTTTTATTTCTATCTTTCTGTAAGCAAAGAAACATCTGGATCCACAAAACTGCTAATTGAGCAGCTAGCGTGTTTAAGGCACATACAGAATTGGAGCACATGAAACATAAAAGACTGCGTACATGGTACCAAGCACAATgattaaaaaagaagaattatCATTAAACAACACAGAAGGATTTAAATGAAGCCTGTGAATTACCTACTATAGCTTACCAATTATATCATGAAATCTTTTTCTCATATTCAAAAAATGAATTACCTGCTGACCCACTATTAAGTATTGGATGGATTAACACCTGTACTACCTATTCACaattaatagtagtaataaataataataatgcactttattTATTGCATTCTGTGAACTAACCCAGCTGTGCTGAGGAATGCCGTCCGCAAATGTAGCGAAAAGCAAAAGTACAATTTTCCGCAGCCAGACAAGGTTAAAAGAAGCAAATACGACAATTAAGATAAAAGAATTTGATGTTAATTGAATTATTCTTGTGTATTTGCATCCACCATTAGCTTCTTCTTTCATGTAATGTATCtcatatgatattttttttgagTGAATGTGGGCAATGTTTAAAAGaggcacttaaaaatgacaactTTTAAATggaccttaaaaaaacacaaaaaaactaaaaatgccTTTCGGTCTGGCAGAGCCGTCTCCTGTTTACAGCAATCCTAGCCCTAAACAAAACATGTTGTGCCCTCCAAAACCAGCATGCATTCCCGTCTGCCAGAGCTAAACATTTCTCAAGAAAATTAGTCCGTGGAATTTGTCTGTTACAACACTGCCAATTTTATCCTATCAACAGATTTAATACGGTGCCATTAAAGCAGTCAGGCCTCTTTTACACAGGCTGCCTGCAGGCAACACAGGCCAGGAAAACATAATGCCCACTCAGGATTACTGACGAAGGGGGGTGCGCACATTGTTCTGGGGGTTAGGCCCCCAGTCACATCGAATCTCATACAGTCATGTGGAAAACTGCGAGAATCAAACTTAATGTGTGAACCCGTTAATTCTCGACTCATGCTTCTCTCTCACGCTGGCTAATTCTGCTTGCTTCAGAGGAGGTGTTTCAGAATGTCGATACAGGTTGAATAACTGTATGTGTAAAGGTAAAGACAGGAAAagagcttaaaaaaaacttgctttTTGACTGTTGACTCTACTAGCGGGCATTAACAATACACTACTCTTTTAGCACTATGTTCTGCAGTGATGTCTGAAATGGGTCAAATTATTAAGTATACAACATGCATACGGAATTACTGTTAATACTTGACTTGCTAGACATAAAAGGGACCAAGAGAAACACGAAAAGAACTGTTTTTGCAGGGTTTCTAAGATATATGAagattttatcattattttggttttatcaacattttgtccttttgcattttttaaataataaaaggtataaatatctaaatatatcatatcataatcTGCCAACACTGGTTTCCATACatagatatttttattggtcAGTTCATATCACCCAGCCTTTAAACTAGGATAAACTGAAGCTGTTTAAACTTGTACCCTTGCTTTCATTTCCTTGAAGTCTTAAGATTTGTCCACTGGCAACACTGACTTGTATCAGATTTTGCCAAaatttttgcattgtttgtactctgcctttattattattattcaattgTTCAATCCATCCCACCAATATGTGCTTCAGGCCACTGGTAATGTATATACCGTCCCCATTCCTCCCAAACAATGTGAAGACCATTTCTCTGTAGGTGGCAGCTTACttcatatatattgtatgtactTTTTTACGAGTTTGTActttatgtgtattttcattcatattttgaaataaatcaTCATATATGAA

Function

symbol description
cxcl12a Enables chemoattractant activity. Acts upstream of or within several processes, including fin regeneration; nervous system development; and regulation of cell migration. Predicted to be located in extracellular space. Is expressed in several structures, including brain; mesoderm; myoseptum; neural rod; and sensory system. Human ortholog(s) of this gene implicated in breast carcinoma; diabetic angiopathy; human immunodeficiency virus infectious disease; and type 1 diabetes mellitus. Orthologous to human CXCL12 (C-X-C motif chemokine ligand 12).
cxcl12 Enables CXCR chemokine receptor binding activity; chemokine activity; and integrin binding activity. Involved in several processes, including integrin activation; negative regulation of apoptotic process; and regulation of leukocyte migration. Acts upstream of or within positive regulation of T cell migration and positive regulation of cell adhesion. Located in extracellular exosome. Part of collagen-containing extracellular matrix. Implicated in breast carcinoma; diabetic angiopathy; human immunodeficiency virus infectious disease; and type 1 diabetes mellitus. Biomarker of diabetic retinopathy; insulinoma; periodontitis; and type 2 diabetes mellitus.

NR:

description
PREDICTED: stromal cell-derived factor 1

GO:

id name namespace
GO:0042074 cell migration involved in gastrulation biological_process
GO:0090024 negative regulation of neutrophil chemotaxis biological_process
GO:0001764 neuron migration biological_process
GO:0031290 retinal ganglion cell axon guidance biological_process
GO:0006955 immune response biological_process
GO:2000472 negative regulation of hematopoietic stem cell migration biological_process
GO:0050930 induction of positive chemotaxis biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0048842 positive regulation of axon extension involved in axon guidance biological_process
GO:0030239 myofibril assembly biological_process
GO:0031101 fin regeneration biological_process
GO:0008285 negative regulation of cell population proliferation biological_process
GO:0048920 posterior lateral line neuromast primordium migration biological_process
GO:0008354 germ cell migration biological_process
GO:0030900 forebrain development biological_process
GO:0030335 positive regulation of cell migration biological_process
GO:0005576 extracellular region cellular_component
GO:0008009 chemokine activity molecular_function
GO:0042056 chemoattractant activity molecular_function

KEGG:

id description
K10031 CXCL12; C-X-C motif chemokine 12

RNA

RNA id representative length rna type GC content exon number start site end site
TU295009 False 3074 TUCP 0.39 4 18837362 18847028
XM_022684782.1 True 3088 mRNA 0.39 4 18837344 18847024

Neighbor

gene id symbol gene type direction distance location
c25h10orf10 LOC103031081 coding upstream 104823 18731597 ~ 18732521 (+)
LOC103029282 ppifa,LOC108442288,LOC107588732,LOC107668776,LOC108263515,LOC107564349,LOC107673899,LOC105909881 coding upstream 196469 18636068 ~ 18640875 (+)
LOC103028339 LOC108443181 coding upstream 202741 18376648 ~ 18634603 (+)
rps24 LOC102780737 coding upstream 484314 18349740 ~ 18353030 (+)
LOC103025593 LOC108443100,LOC108263458 coding upstream 499523 18322590 ~ 18337821 (+)
ercc6 ercc6 coding downstream 62918 18909946 ~ 18938453 (+)
drgx drgx,LOC107673892,LOC107548637,LOC107588616,LOC107708289 coding downstream 95220 18942248 ~ 18948011 (+)
LOC107197625 vstm4 coding downstream 128031 18975059 ~ 18990050 (+)
LOC103032870 NA coding downstream 170279 19017307 ~ 19019746 (+)
LOC103033826 LOC108443358 coding downstream 233697 19080725 ~ 19089231 (+)
G217439 NA non-coding upstream 63933 18718305 ~ 18773411 (+)
G217442 NA non-coding upstream 87264 18747392 ~ 18750080 (+)
G217438 NA non-coding upstream 123034 18714051 ~ 18714310 (+)
G217435 NA non-coding upstream 138193 18697993 ~ 18699151 (+)
G217433 NA non-coding upstream 141550 18688372 ~ 18695794 (+)
G217472 NA non-coding downstream 91997 18939025 ~ 18939903 (+)
LOC111195980 NA non-coding downstream 372485 19219513 ~ 19231760 (+)
G217696 NA non-coding downstream 425909 19272937 ~ 19273154 (+)
G217715 zdhhc16,LOC108443446 non-coding downstream 515650 19362678 ~ 19365255 (+)
G217768 NA non-coding downstream 651036 19498064 ~ 19518320 (+)
LOC103030769 LOC103030769 other upstream 93017 18743206 ~ 18744327 (+)
eif4ebp2 eif4ebp2,LOC107564345,LOC107716353,LOC107668794,LOC107673927 other upstream 520116 18311893 ~ 18317228 (+)
pax2 pax2,pax2a,LOC107668824,LOC101463634,LOC107588637,LOC107716343,LOC107585307 other upstream 797992 18004253 ~ 18039352 (+)
LOC111195981 tacc2 other upstream 1653093 17149342 ~ 17184251 (+)
borcs7 borcs7 other upstream 1829807 17004541 ~ 17007537 (+)
LOC103040131 ptpn20,LOC108443401,LOC102205930,LOC108262844 other downstream 313625 19160653 ~ 19216989 (+)
rrp12 rrp12,LOC106529656 other downstream 476878 19323906 ~ 19345404 (+)
G217874 nkx2-3 other downstream 1173386 20020414 ~ 20074343 (+)
LOC103032529 prkg1,LOC108443637,LOC108263833,LOC103355670,LOC103373746,LOC107665604,LOC107747254 other downstream 1488919 20335947 ~ 20415643 (+)
mark3 mark3 other downstream 3213935 22060963 ~ 22098259 (+)

Expression


Co-expression Network