cxcl12a (cxcl12)


Basic Information

Item Value
gene id cxcl12a
gene name cxcl12
gene type misc
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 16124627 ~ 16134002 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU55827
TAACACGCGCACGCGGTCGCTGCTCTCCTCAGTGCGGGATTCTGCAGTGCGGTTCTCTTCTTCACACGCAACATGGATGTGAGAGTGATCTTAGTGGCAGTTCTGGTAACGGTGACTATCTATGGATCTGTTTCAGACGCCAAGCCTATCAGCCTGGTCGAGAGGTGTTGGTGCCGTTCTACAGTCACCATGGTCCCCCAGAGGAACATCCGTGAGCTGAAGTTCGTCCACACACCCAACTGTTCTTTCCAAGTCATTGCCAAACTGAAGAACAATAAAGAGGTGTGCCTCAATCCTGAGACAAAATGGCTACAGCAGTACCTTGAGAAAGCCCTTGAAAAaatgaAGAAGGCCAAACAACAGGGCCAGTAAGGAAGCAGCTGGATGGCAAGCCCGTTTGTGAGCCACCACCACAGATATGTACCTGTACCGTATACTGCTCTGGCATGCTTGCTGAACCAGCACTTAACCTGCAAACCTTGCTTCCCTGTCAATGATTTGCCACACCTTCATCACCACCTCTGCTGCCGCTATAGGCACCTCCTTTGTTAGCACAATGTGCAATTAtatatgtatgagtgtgtttttaTACGTATGAGATGTATATACAATGTTTTTATATCGACTTTAAACAGTAAAGAGATATTTTTGGAGTTGCGTTTGCTCCTTGCCTGTCTGTTACAGAGTTAGGTAGCACTGAATGTAGTATGATGATTTCGGAGCAAACATCCCAAATTCTGCAAACTCACAGTGTTCTTTATACTATACCATACAAGAGGAAAAAGTAAAGTGGGAATCACACACTGGTGCAGAGCTGAGCCCCAATGGCAGCATACCTGACAGGAGAACAAATAGGAAGGGAGTTGACTTTCTCCACCcatttaataatcatatttaattaacCCATATCTTAAAAATTTGTAACACTGCATATTGCATGTGAATgtaatattatatgtatatatacacgaAAAGTGAAACGttgcttgtgtttttgttctctgACTAACAGggtgttattttatacaaaagtAAACCAAAAAACCTTGACCTTAGATCAGCCTAAGTAGTCTGAATTCCTTCAGGGAACATACTCCCTCAGAAGTAGcttgtgagaaaaaaatggaaaggaatGCTCTTTTTTCTAAATTCTATCATTGTGTAAGCAAAGAAACATCTGGAGTCACAAACTAACGTAATTAAGCAGCCAGTGTGTGGAAGGCATAAAACTTAAACCAGATTCACGTACAAGCAGAATCATTCAGAATTAACTCAAATTATTTAGAATTAAccagaataatttaattaaatgcacataaaattacacacaatataaaaatacagaagatATCAAATGTACAGAAGTTTTTTACCACCATGTATAAGAAAATATCACCCAGATTTATCATGCAATTGCAGCTTTTATCTCACAAATGTGAGTTAATATTATGCAATTATTATCTCACCATAGCAACTATGAGAAAGGAAAGTTGCGTGAAAGCAATTGCAACTACTTTTTATCTCATAACTGCAAATTATTCTGACTCAGCTGCCACACAATGTTTCTCACAGTTGTGAGTTAATATCATGCACTCTTCATCTCGtaatttgaaaataattcaCAAAACGTAATTGCAACTTTTTATCTCTGGCCACTCCAGGAGAATGTCTTAGGCTGAACAGGATAACGTGCCTGTGGTTTGGTGTGGCTTGGTTAGGGGTCGGGGGATAGCCTAATAAGCAGAAGCATGAAGTCAGCTCACAACTGTGAGATATTAACTCGCAATTGCAGGATAAAACGTCTCAATTGTGTGATATAAACTCTCAATTGCAGAACAAAATGTTTCAAGTGCATGATATCTCTCGACTGTGAGATAAAAAGCTGCAAATGTGTAATATTAACTTGCAATTATGAGATAAATctatataatattttctcatatgTCAGGGAAACAAGCTTCAATAGAGATGTTACTAACTTGCTAAGTAGATTAGAATATTGATATGCACGTGAGATTAGTTAAAAAGACGTAGAGGTAGACATTTCAAATTACTGGACTAAAATACCTAATAACTATCAATAATGGTATaataatgcactttatttacTGTGTCCTGATATCTATTGTGAGGATTACCATCCACAGCAAATAGTCCACTTTTCTATGGTTAAAAAGAAGTTAGAATAGACAAATTTACTTTTCCTTTTGGGAAAACAAGCCCTTACAACAATCAGTTTTACACAGctattcaaaaaagaaaaaatattgattCTGACTATTAAAAAGTGCACTATAAAACTAACCTATATTTCTGTCTGCCAGACACCTCTCAAGGAAAATAGTGTATGAAATTTGTCTGTAACATGACTGCTAATTTGATCCTGTCAAGCGATTTAAAGCAGTCGTTAAAGCAGCCAGGCCTCTTTTACACAGGCAGCCTGCAGGCACACAGGCCAGGAAACATAATGCCCAATCAGCATTAGAGAGGAAGTCTGTAGGCAATGTTGTGGGGGTTAGGCCACCAGTTACAGTCCATTTCATACagtgatgtgaaaaaaagtcagaattgaACAGACCCTAATGATTAATTACCAATTTGTACCCCTGGTTTCTTCCATACTGGCAAAGAACATACGTATTGAGAAAATGCACATGCTTATACAAGGAAATTGAACCACTGAGCTTGATAACTTGCTGATTAATTCACTTAGTGGGCATTAACACTAAATTTCTGTAGTGTCAGTGAACAGCATGAACTATGCAACATTGAATTCAGGACAAATTTCACTTGAATGAAGCAACACTGAGCGGTTATGTATACAGGATGTGTAAAGGAAGAAGTCAGTAAATCCTGCTCCATTACAGGGGTTATTTTACTTGCTAGACAAAAATGCTTCCAAACAAACAATGAgagaaacaaaataacaatgCTTTGGGGAGTGTCTTAAATCATAATGATAACGAAAATGTAGCAATCAGTTGAGAGCACATTCAAATAATACTTTACTATCCTAACTTtaatgggcttttttttttgttaatacaaCTATAAACACTAGTCCTAGCCCAAGGCACTTTCTGCAAGGTGTAAACAAAtgagatgagtgtgtttatctatcactttaaaaaaataaggtgcTACCACcatcaaaatgtgattgaagCCATTGATAATATGTCTATTTTCCCCTCATAACTCCCAAATAATGTGAAGGACATTACTTTATAGATGG
>XM_026934386.2
AGGGGCAGGATAGGGGTGTAGAGGGGCTATGGGTGAGTTTAACACGCGCACGCGGTCGCTGCTCTCCTCAGTGCGGGATTCTGCAGTGCGGTTCTCTTCTTCACACGCAACATGGATGTGAGAGTGATCTTAGTGGCAGTTCTGGTAACGGTGACTATCTATGGATCTGTTTCAGACGCCAAGCCTATCAGCCTGGTCGAGAGGTGTTGGTGCCGTTCTACAGTCACCATGGTCCCCCAGAGGAACATCCGTGAGCTGAAGTTCGTCCACACACCCAACTGTTCTTTCCAAGTCATTGCCAAACTGAAGAACAATAAAGAGGTGTGCCTCAATCCTGAGACAAAATGGCTACAGCAGTACCTTGAGAAAGCCCTTGAAAAaatgaAGAAGGCCAAACAACAGGGCCAGTAAGGAAGCAGCTGGATGGCAAGCCCGTTTGTGAGCCACCACCACAGATATGTACCTGTACCGTATACTGCTCTGGCATGCTTGCTGAACCAGCACTTAACCTGCAAACCTTGCTTCCCTGTCAATGATTTGCCACACCTTCATCACCACCTCTGCTGCCGCTATAGGCACCTCCTTTGTTAGCACAATGTGCAATTAtatatgtatgagtgtgtttttaTACGTATGAGATGTATATACAATGTTTTTATATCGACTTTAAACAGTAAAGAGATATTTTTGGAGTTGCGTTTGCTCCTTGCCTGTCTGTTACAGAGTTAGGTAGCACTGAATGTAGTATGATGATTTCGGAGCAAACATCCCAAATTCTGCAAACTCACAGTGTTCTTTATACTATACCATACAAGAGGAAAAAGTAAAGTGGGAATCACACACTGGTGCAGAGCTGAGCCCCAATGGCAGCATACCTGACAGGAGAACAAATAGGAAGGGAGTTGACTTTCTCCACCcatttaataatcatatttaattaacCCATATCTTAAAAATTTGTAACACTGCATATTGCATGTGAATgtaatattatatgtatatatacacgaAAAGTGAAACGttgcttgtgtttttgttctctgACTAACAGggtgttattttatacaaaagtAAACCAAAAAACCTTGACCTTAGATCAGCCTAAGTAGTCTGAATTCCTTCAGGGAACATACTCCCTCAGAAGTAGcttgtgagaaaaaaatggaaaggaatGCTCTTTTTTCTAAATTCTATCATTGTGTAAGCAAAGAAACATCTGGAGTCACAAACTAACGTAATTAAGCAGCCAGTGTGTGGAAGGCATAAAACTTAAACCAGATTCACGTACAAGCAGAATCATTCAGAATTAACTCAAATTATTTAGAATTAAccagaataatttaattaaatgcacataaaattacacacaatataaaaatacagaagatATCAAATGTACAGAAGTTTTTTACCACCATGTATAAGAAAATATCACCCAGATTTATCATGCAATTGCAGCTTTTATCTCACAAATGTGAGTTAATATTATGCAATTATTATCTCACCATAGCAACTATGAGAAAGGAAAGTTGCGTGAAAGCAATTGCAACTACTTTTTATCTCATAACTGCAAATTATTCTGACTCAGCTGCCACACAATGTTTCTCACAGTTGTGAGTTAATATCATGCACTCTTCATCTCGtaatttgaaaataattcaCAAAACGTAATTGCAACTTTTTATCTCTGGCCACTCCAGGAGAATGTCTTAGGCTGAACAGGATAACGTGCCTGTGGTTTGGTGTGGCTTGGTTAGGGGTCGGGGGATAGCCTAATAAGCAGAAGCATGAAGTCAGCTCACAACTGTGAGATATTAACTCGCAATTGCAGGATAAAACGTCTCAATTGTGTGATATAAACTCTCAATTGCAGAACAAAATGTTTCAAGTGCATGATATCTCTCGACTGTGAGATAAAAAGCTGCAAATGTGTAATATTAACTTGCAATTATGAGATAAATctatataatattttctcatatgTCAGGGAAACAAGCTTCAATAGAGATGTTACTAACTTGCTAAGTAGATTAGAATATTGATATGCACGTGAGATTAGTTAAAAAGACGTAGAGGTAGACATTTCAAATTACTGGACTAAAATACCTAATAACTATCAATAATGGTATaataatgcactttatttacTGTGTCCTGATATCTATTGTGAGGATTACCATCCACAGCAAATAGTCCACTTTTCTATGGTTAAAAAGAAGTTAGAATAGACAAATTTACTTTTCCTTTTGGGAAAACAAGCCCTTACAACAATCAGTTTTACACAGctattcaaaaaagaaaaaatattgattCTGACTATTAAAAAGTGCACTATAAAACTAACCTATATTTCTGTCTGCCAGACACCTCTCAAGGAAAATAGTGTATGAAATTTGTCTGTAACATGACTGCTAATTTGATCCTGTCAAGCGATTTAAAGCAGTCGTTAAAGCAGCCAGGCCTCTTTTACACAGGCAGCCTGCAGGCACACAGGCCAGGAAACATAATGCCCAATCAGCATTAGAGAGGAAGTCTGTAGGCAATGTTGTGGGGGTTAGGCCACCAGTTACAGTCCATTTCATACagtgatgtgaaaaaaagtcagaattgaACAGACCCTAATGATTAATTACCAATTTGTACCCCTGGTTTCTTCCATACTGGCAAAGAACATACGTATTGAGAAAATGCACATGCTTATACAAGGAAATTGAACCACTGAGCTTGATAACTTGCTGATTAATTCACTTAGTGGGCATTAACACTAAATTTCTGTAGTGTCAGTGAACAGCATGAACTATGCAACATTGAATTCAGGACAAATTTCACTTGAATGAAGCAACACTGAGCGGTTATGTATACAGGATGTGTAAAGGAAGAAGTCAGTAAATCCTGCTCCATTACAGGGGTTATTTTACTTGCTAGACAAAAATGCTTCCAAACAAACAATGAgagaaacaaaataacaatgCTTTGGGGAGTGTCTTAAAT

Function

symbol description
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
chemokine CXCL12a precursor

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: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU55827 True 3235 lncRNA 0.38 4 16124666 16134002
XM_026934386.2 False 2991 mRNA 0.38 4 16124627 16133719

Neighbor

gene id symbol gene type direction distance location
si:ch73-6k14.2 c3h10orf10 coding upstream 67369 16056384 ~ 16057258 (+)
ppifa ppifa,LOC108263515,LOC108442288,LOC107588732,LOC107668776,LOC107564349,LOC107673899,LOC105909881 coding upstream 133573 15987439 ~ 15991054 (+)
zmiz1a zmiz1,LOC108443181 coding upstream 138274 15873317 ~ 15986353 (+)
rps24 rps24 coding upstream 297160 15821093 ~ 15827467 (+)
pald1b LOC108263458,LOC108443100 coding upstream 311855 15799228 ~ 15812772 (+)
ercc6 ercc6 coding downstream 29096 16163098 ~ 16181155 (+)
drgx drgx,LOC107673892,LOC107548637,LOC107588616,LOC107708289,LOC107668808 coding downstream 49007 16183009 ~ 16188933 (+)
vstm4a vstm4,LOC108263377 coding downstream 76558 16210560 ~ 16219838 (+)
si:ch211-223a10.1 LOC108263376 coding downstream 137295 16271297 ~ 16279590 (+)
ptpn20 LOC108262844 coding downstream 189551 16323553 ~ 16358384 (+)
G47224 NA non-coding upstream 20577 16103836 ~ 16104050 (+)
G47084 NA non-coding upstream 89288 16033304 ~ 16035339 (+)
G47071 NA non-coding upstream 228548 15893581 ~ 15896079 (+)
G47043 LOC108242967,LOC103387234,LOC106515310,LOC107375910,LOC107098787,LOC103476842 non-coding upstream 409103 15711137 ~ 15715524 (+)
G46849 NA non-coding upstream 650757 15473201 ~ 15473870 (+)
G47265 c3h10orf71 non-coding downstream 58693 16192695 ~ 16203524 (+)
G47406 znf488,prdm8,LOC107757101,LOC107708270,LOC107673884,LOC107548615,LOC107588729,LOC107668783 non-coding downstream 261003 16395005 ~ 16397038 (+)
LOC117596920 NA non-coding downstream 308060 16442062 ~ 16451765 (+)
G47431 NA non-coding downstream 325243 16459245 ~ 16459911 (+)
LOC117596359 NA non-coding downstream 358316 16492318 ~ 16531380 (+)
cxcl18a.1 LOC108263637 other upstream 48977 16070714 ~ 16075650 (+)
eif4ebp2 eif4ebp2,LOC107564345,LOC107668794,LOC107716353 other upstream 327423 15793406 ~ 15797204 (+)
borcs7 borcs7 other upstream 1150559 14972568 ~ 14974068 (+)
cgas NA other upstream 1756527 14361367 ~ 14368100 (+)
slc24a3 slc24a3,LOC107693448,LOC107718828,LOC107716313,LOC107673935 other upstream 1838085 14213369 ~ 14286542 (+)
lrrc18a lrrc18,LOC108263378 other downstream 100512 16234514 ~ 16237542 (+)
arhgap22 arhgap22,LOC108263673,LOC108443345,LOC107668831,LOC107588697 other downstream 151120 16285122 ~ 16308898 (+)
marveld1 marveld1,LOC107665576,LOC107664302,LOC107736855,LOC107564681 other downstream 331937 16465939 ~ 16467350 (+)
LOC113541016 ankrd2 other downstream 839680 16973682 ~ 16977029 (+)
dlg5a dlg5 other downstream 2042739 18176741 ~ 18222050 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_006070 cxcl12a coding NC_007124.7 CM002897.2 30804367 ~ 30819715 (+)
grasscarp (Ctenopharyngodon idella) G74792 NA non-coding CI01000012 null 9006633 ~ 9006790 (-)
tiger barb (Puntius tetrazona) cxcl12a cxcl12a,LOC107588617,LOC107707253,LOC107548639,LOC107673912,LOC107757152 misc NC_056711.1 CM032080.1 11255594 ~ 11262620 (+)