sox18 (sox18,sox17,LOC103367850,LOC103467917,LOC103385144,LOC108436137,LOC104941087,LOC107736623)


Basic Information

Item Value
gene id sox18
gene name sox18,sox17,LOC103367850,LOC103467917,LOC103385144,LOC108436137,LOC104941087,LOC107736623
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047610.1
NCBI id CM018556.1
chromosome length 25111544
location 13466509 ~ 13488511 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026920139.2
TACAACGTTCAAATTTGGAGCTGAAAACACTCAGCTTGCTTGGACAGCAGGAGCTAGTGAGCACTGTCATCTATCTTtgggaatttatttttatttttctaccaACATCAGACCAACATTCCTGCTTTGAttcttgtcatttttgttttctgttctctaataatttttttttacatgcgtATGCGGGGAACATAATTGCAGTACAAACATAACCAGAAAAAACTGACAGGTCCTGCAATTGGCTTTAATTTAGCAAACTTTGTGTCATCATCACAAGGAGGTCTTTGCTGGAATGAATATATCTGAGTCTAGTTATTGTTCAGAGGCCAGCACTCAGCCCAGCCAGGTTGTGGAGTGTGGAGCATGGGTCGCTTCGTCATCTTCCAGCCCAGTAGGTCCTGAGAGGAGCCGCAGGTTTGATCATGAAGCAGGTGGTGGAGTGAAGGAGAGGAGAACAGGAAGCCCGGATTCAAGCCAATCCAGTGAGGGAAAGTGTGGGGCTGAGCCGAGGATCCGGAGGCCCATGAATGCCTTTATGGTGTGGGCTAAGGATGAACGCAAGCGGCTGGCATTGCAGAATCCAGATCTACACAACGCCGTGCTAAGCAAGATGCTAGGCCAGTCCTGGAAGGCTCTGAGCACACTGGACAAGCGTCCCTTCGTAGAGGAAGCCGAACGTCTCCGACTGCAACATCTTCATGACCATCCCAACTACAAATACCGGCCTCGGCGCAAAAAGCAGCCCAAAAAGATAAAGCGAGTGGAGCCTGGCCTGCTTCTCCATGGTCTTGGTGGATGCTCTGGGACTGGAGATGCCTACCCCCAGCACCCTCATCCCCACCACCTTCTACCCTCTTTGGGCCATTTCCGAGAACTTCATCCTGGATCTGGTGCACAGGATCTGGAGATCTATGGCCTCCCCACGCCTGAGATGTCTCCTCTGGACGTGCTGGAGGAGGGCGGAGGAGACTCTGTCTTCTTTCCCCCTCACATGCAGGATGATGTGGGCTTGGCACCTTGGGTCAACTATCACCAGCACCAACAGCAAAGCCAAAGCCACCATGCTAACCACCATCCCCCAAATATCCACTCTCTCCACCActcccacccccacccccacctcaACCAGAAACCTGCACCAGGTTGCCGTTCCATGCACGAGAAATGCTCAGAACCTACGAACCCTCACAATCTCTTCCCTTCCCATTCCAGTATAAGTCTCCCAGAAGAGGCTAAGGTCCCACAACCCTCTAGTGTTCCACTTCAAAGTGTTTACTATGGTCAGATTTAtggaaacaccccacaacagCCCTTCACCTCTCAACTTGGCCAACTTTCTCCCCCTCCAGAATCTTCCACCCCGGTTCCTACTCCCTCTGCCTCCCAGGTTCCACCACCCTCCCTGGACAATAATGACCACCTAGGACCTTCAGCAGATTTCTGGAGCGAAGTGGACCATCATGAGTTTGAGCAGTATTTGAGTGCCAGCAGGACTCGAGTAAACAGGAGCACTGCATGTGAAGAGAGCAGCACGCTCATATCAGCCCTGTCTGATGCCAGCAACGCTGTCTACTACAGCGCCTGTATTACTGGATAAAGACTTCTAGCAAATGCTAGTTTTAAAATCAGGtgtatatgatttttttgtgtgcaaGAATATCAGTTTATTTGATTAACTGTGTTGGCCTGGTTAAATTTTCCTCCTAAGTGTCAAGTGAGTCATTTCAAATGTTGTTAAGGAGATTGAatatttggttgtttttttttttttagaagttgCGGAAGAATACGTGTACATTACAGACTACAGAAAGATGTTTCTTTTTGCACCTTTTTTAAGGGCTTTATGACATATAGTTCTCAAGGCCACAGTCAGTTTTTCAACAGTTTAGCAGACTACATTCAGCTACAGTATTCATATATACCAGTCACAGCAATGTTCATATCAGATGAGGCTACAAAAGCAGGGACAATAAGAATGTGaatgtttctttcattttctcagaGGGTTTTGTATTTacgtatttgtttttttaatctttcttttatataattgttaaaaaatattatgtttgcACTGGGTCAGAATGTTTTGAACTGTATGAGAAACCACTCGAAACTCCTTAATTCTGCACTTGATGTCTCTCAAGCAAAGAAAGTCATGTTCATGAAAGAGACCACAAAATCATCTCTGGAATTTGGATCTCTTGAAGACTGtaatttattgtgtattttcttGCCATATGACTGAAAAGGTCATTtagtatatatgtattttattaatccTCTGTAAATGTATTCTGTAATCCTCTGAGTCAGCAATTGAGAGACATGTTGAGTTAGTAATAACTTTCCAGCTTTTGGTAGTAATTATCTTCAAATAGAAgtgttttcaataaaaaaaactgtctctCAGCCATTAAATCAAAACAAGTaattggaaacacacaattcatTTCATAGAATCATTTTCCCACACTGAAGAGGACATGCATTTTGATTTTATACATGTGAATAGTTTTTGCATTTTAAGTTTTGTTCTCAAAAATGCATTTGTATTGCACATCCACACATTTCACTGagtatttttcaaaaataaaggCTTAAAACATGA
>XM_034311539.1
GAACAGTAGAGGTGGTGTGCTGTTTAGTGACTTTGGAGGTTTTGTTGCGTACTGCTGGAGCTGGCAACCATTACCAGAGTGGTCACACTAATGGAAGCAGCACAACTTTCTCAGTCTCCCTGTTCCTGTGTTTTAGAGGCCAGCACTCAGCCCAGCCAGGTTGTGGAGTGTGGAGCATGGGTCGCTTCGTCATCTTCCAGCCCAGTAGGTCCTGAGAGGAGCCGCAGGTTTGATCATGAAGCAGGTGGTGGAGTGAAGGAGAGGAGAACAGGAAGCCCGGATTCAAGCCAATCCAGTGAGGGAAAGTGTGGGGCTGAGCCGAGGATCCGGAGGCCCATGAATGCCTTTATGGTGTGGGCTAAGGATGAACGCAAGCGGCTGGCATTGCAGAATCCAGATCTACACAACGCCGTGCTAAGCAAGATGCTAGGCCAGTCCTGGAAGGCTCTGAGCACACTGGACAAGCGTCCCTTCGTAGAGGAAGCCGAACGTCTCCGACTGCAACATCTTCATGACCATCCCAACTACAAATACCGGCCTCGGCGCAAAAAGCAGCCCAAAAAGATAAAGCGAGTGGAGCCTGGCCTGCTTCTCCATGGTCTTGGTGGATGCTCTGGGACTGGAGATGCCTACCCCCAGCACCCTCATCCCCACCACCTTCTACCCTCTTTGGGCCATTTCCGAGAACTTCATCCTGGATCTGGTGCACAGGATCTGGAGATCTATGGCCTCCCCACGCCTGAGATGTCTCCTCTGGACGTGCTGGAGGAGGGCGGAGGAGACTCTGTCTTCTTTCCCCCTCACATGCAGGATGATGTGGGCTTGGCACCTTGGGTCAACTATCACCAGCACCAACAGCAAAGCCAAAGCCACCATGCTAACCACCATCCCCCAAATATCCACTCTCTCCACCActcccacccccacccccacctcaACCAGAAACCTGCACCAGGTTGCCGTTCCATGCACGAGAAATGCTCAGAACCTACGAACCCTCACAATCTCTTCCCTTCCCATTCCAGTATAAGTCTCCCAGAAGAGGCTAAGGTCCCACAACCCTCTAGTGTTCCACTTCAAAGTGTTTACTATGGTCAGATTTAtggaaacaccccacaacagCCCTTCACCTCTCAACTTGGCCAACTTTCTCCCCCTCCAGAATCTTCCACCCCGGTTCCTACTCCCTCTGCCTCCCAGGTTCCACCACCCTCCCTGGACAATAATGACCACCTAGGACCTTCAGCAGATTTCTGGAGCGAAGTGGACCATCATGAGTTTGAGCAGTATTTGAGTGCCAGCAGGACTCGAGTAAACAGGAGCACTGCATGTGAAGAGAGCAGCACGCTCATATCAGCCCTGTCTGATGCCAGCAACGCTGTCTACTACAGCGCCTGTATTACTGGATAAAGACTTCTAGCAAATGCTAGTTTTAAAATCAGGtgtatatgatttttttgtgtgcaaGAATATCAGTTTATTTGATTAACTGTGTTGGCCTGGTTAAATTTTCCTCCTAAGTGTCAAGTGAGTCATTTCAAATGTTGTTAAGGAGATTGAatatttggttgtttttttttttttagaagttgCGGAAGAATACGTGTACATTACAGACTACAGAAAGATGTTTCTTTTTGCACCTTTTTTAAGGGCTTTATGACATATAGTTCTCAAGGCCACAGTCAGTTTTTCAACAGTTTAGCAGACTACATTCAGCTACAGTATTCATATATACCAGTCACAGCAATGTTCATATCAGATGAGGCTACAAAAGCAGGGACAATAAGAATGTGaatgtttctttcattttctcagaGGGTTTTGTATTTacgtatttgtttttttaatctttcttttatataattgttaaaaaatattatgtttgcACTGGGTCAGAATGTTTTGAACTGTATGAGAAACCACTCGAAACTCCTTAATTCTGCACTTGATGTCTCTCAAGCAAAGAAAGTCATGTTCATGAAAGAGACCACAAAATCATCTCTGGAATTTGGATCTCTTGAAGACTGtaatttattgtgtattttcttGCCATATGACTGAAAAGGTCATTtagtatatatgtattttattaatccTCTGTAAATGTATTCTGTAATCCTCTGAGTCAGCAATTGAGAGACATGTTGAGTTAGTAATAACTTTCCAGCTTTTGGTAGTAATTATCTTCAAATAGAAgtgttttcaataaaaaaaactgtctctCAGCCATTAAATCAAAACAAGTaattggaaacacacaattcatTTCATAGAATCATTTTCCCACACTGAAGAGGACATGCATTTTGATTTTATACATGTGAATAGTTTTTGCATTTTAAGTTTTGTTCTCAAAAATGCATTTGTATTGCACATCCACACATTTCACTGagtatttttcaaaaataaaggCTTAAAACATGA

Function

symbol description
sox17 Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within Kupffer's vesicle development; determination of left/right symmetry; and primitive hemopoiesis. Predicted to be located in nucleus. Is expressed in several structures, including Kupffer's vesicle; endoderm; lateral plate mesoderm; liver and biliary system; and presumptive structure. Human ortholog(s) of this gene implicated in vesicoureteral reflux. Orthologous to human SOX17 (SRY-box transcription factor 17).
sox18 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within artery development; lymphangiogenesis; and vasculogenesis. Predicted to be located in nucleus. Is expressed in several structures, including angioblastic mesenchymal cell; cardiovascular system; immature eye; intermediate cell mass of mesoderm; and mesoderm. Human ortholog(s) of this gene implicated in hypotrichosis-lymphedema-telangiectasia syndrome and hypotrichosis-lymphedema-telangiectasia-renal defect syndrome. Orthologous to human SOX18 (SRY-box transcription factor 18).

NR:

description
PREDICTED: transcription factor Sox-18B-like

GO: NA

KEGG:

id description
K09270 SOX7S; transcription factor SOX7/8/10/18 (SOX group E/F)

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026920139.2 True 2614 mRNA 0.43 2 13484741 13488511
XM_034311539.1 False 2427 mRNA 0.45 3 13466509 13488511

Neighbor

gene id symbol gene type direction distance location
rgs19 rgs19,LOC108275976,LOC107727031,LOC107666537 coding upstream 35628 13386896 ~ 13430881 (+)
LOC117599301 NA coding upstream 81565 13373774 ~ 13384944 (+)
npbwr2b npbwr2,LOC108410549,LOC107727007,LOC107558229,LOC571123,LOC107559472,LOC107705671,LOC107666655 coding upstream 276827 13168514 ~ 13189682 (+)
pofut1 pofut1,LOC107707748,LOC107747492,LOC107558235,LOC107681402 coding upstream 511468 12949732 ~ 12955041 (+)
tm9sf4 tm9sf4,LOC107681873,LOC107690854 coding upstream 569586 12876035 ~ 12896923 (+)
xkr7 xkr7,LOC108435212 coding downstream 21077 13509588 ~ 13571301 (+)
ccm2l ccm2l,LOC107666505 coding downstream 86005 13574516 ~ 13587741 (+)
cables2b cables2,LOC107726996,LOC103130974,LOC107666605,LOC103370114 coding downstream 101954 13590465 ~ 13621861 (+)
snx21 snx21 coding downstream 573197 14061708 ~ 14067419 (+)
phactr3a LOC108276101,LOC108438212,LOC107696979,LOC107705714 coding downstream 598564 14087075 ~ 14120704 (+)
G254123 NA non-coding upstream 473297 12993002 ~ 12993212 (+)
G254006 NA non-coding upstream 532208 12933229 ~ 12934301 (+)
G254007 plagl2 non-coding upstream 562143 12903970 ~ 12904366 (+)
G254005 NA non-coding upstream 564132 12899453 ~ 12902377 (+)
G253938 NA non-coding upstream 752353 12704127 ~ 12714156 (+)
G254287 NA non-coding downstream 19040 13507551 ~ 13507783 (+)
G254403 NA non-coding downstream 124827 13613338 ~ 13613537 (+)
G254404 NA non-coding downstream 125436 13613947 ~ 13614240 (+)
LOC117599220 NA non-coding downstream 232773 13721284 ~ 13722885 (+)
LOC113530938 NA non-coding downstream 234854 13723365 ~ 13727382 (+)
kif3b kif3b,LOC107690851,LOC107558233,LOC107559485 other upstream 496500 12956130 ~ 12970009 (+)
rbbp8l rbbp8nl other upstream 612129 12837051 ~ 12854380 (+)
LOC113530266 dnmt3b,dnmt3bb.2,LOC107559473,LOC107747973,LOC105013881,LOC107603154 other upstream 1080513 12366613 ~ 12385996 (+)
ppdpfb pdpfb,ppdpf,LOC107747982,LOC107563664,LOC107657053,LOC107560892 other upstream 1322982 12141472 ~ 12143527 (+)
trim101 LOC108276180 other upstream 1345137 12113622 ~ 12121372 (+)
wfdc2 wfdc3,LOC108276102,LOC105013800 other downstream 581717 14070228 ~ 14072216 (+)
G254991 krt18,LOC107681396,LOC107727028,LOC107666358,LOC107551541 other downstream 1133806 14622317 ~ 14673952 (+)
rps21 rps21,LOC107666483 other downstream 1628559 15117070 ~ 15167668 (+)
LOC113530889 LOC108275684,LOC108443123,LOC107705670 other downstream 2721579 16210090 ~ 16229406 (+)
spo11 spo11 other downstream 2743502 16232013 ~ 16326614 (+)

Expression


Co-expression Network