sox2 (sox2)


Basic Information

Item Value
gene id sox2
gene name sox2
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047605.1
NCBI id CM018551.1
chromosome length 26640196
location 11742948 ~ 11745835 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026930243.2
ttcttctttcttattGTCCTGCCTGAAGTAGAGACAACatccaaaacaaaaaagctgcTTATTTTGTGATGATTGACATCAGAGTCGATTCAAGAGCATCCAGGcgcacaaaagaagaaaattcgtgcactacaaacacaaaaattgAGATAACGGAAGGATAAAATAGATAACAGTCcatataacaatattaataattctATATTACAGATGCGTGGTACATGCAATGCAGGGATTTCCCTTAGCCATAGTATTTCAGACTGTTGGTGATGAAGATTCACTCGAAAATTGCTTgttagatttcttttttaaaaaagttagtATTCATAAAGAAGCACTTTACTTAAAACTTTGATACACGTAGAATAAAACGTCTAAAAGTTCGCTTTTGTGAAAACAACTAGACAACAGTTGCACTACAACAGATTCCTAACATATCAAACCTGTTAACATACAACATCCTGACATAAACCCAGGTTAATGTCGTCATAATTCCAAGTTTTCAGCAGATTTTCACTAAAATCTTTGCCATGATTAAACTCTTTGGTGAGTTAGTGCTGTGTCTGCCTCACTGCTGTGTAGCGGAGTAGCCCCGCCCCTTTATGCTAATCAAACCCACCCAGGCGCGCTGTGATTGGCCAGGTGGAAACCCATTTATATTCGCTGTGACAGTCGCTCCATGAATGGTTGTCTATTAACTTGTTCAAAAAGTATCAGGAGTTGTCAAGGCTTGTGGTGTCGGAAGAGGGGAAAACGGAGGAGTTTTGATTTCTTTAAGACTCAGAAAGAAGTTTTGTGAGCGCGAGAGGACTTTTTACTGGGagcaaaacagaaagaagagagagatttttttttttttttaactccgaAAGAGGTTGgaactttgtatttttttgtttttgttttgttttatttttactttcgtTTGGTCGGTCGAGGAAGAGTTTTCCCCAAACCGGCGTTTTAAATGTACAACATGATGGAGACCGAGTTGAAACCCAATCCCGGGGGTAATAACACCGGCACCGGGAACAGCGGAGGCGGCACACCGGGGCAGAAGAACAGTCCGGAGCGCGTAAAGAGGCCCATGAACGCGTTCATGGTGTGGTCCCGCGGTCAGCGGCGGAAAATGGCGCAAGAGAACCCGAAGATGCACAACTCGGAGATCAGTAAGAGGCTGGGCGCGGAGTGGAAGCTGCTGTCCGAGTCTGAGAAGCGGCCGTTCATCGACGAGGCCAAGCGGCTGCGCGCTCTGCACATGAAGGAGCACCCGGACTACAAGTACCGACCGCGGCGGAAGACCAAGACGCTCATGAAGAAGGACAAGTACGCGCTGCCCGGCGGGCTCCTGGCACcgggcggcggcggcggcggaaACCTGGGCGGAAACGGCATGAGCGCCGGCGTGGGCTCGGGCCTCGGCGGCCTCGGCGTCAACCTCGGGGTCAATCAGAGGATGGACGCGTACGCGCACATGAACGGCTGCTGGAGCAACGGAGGCTACGGCATGATGCAGGAACAACTGGGATACGCGGCGGCGGCGAGTCccatgcagcagcagcagcagcagcaccacgTCCACCGCTACGACATGAGCGCGCTGCAGCCGTACGGCTCCATGACGAGCGCGCAGACCTACATGAACGGCTCGCCCACATACAGCATGTCGTCTTACCCGCAGCTCAGCTCCATGGGCTCGGCTGTGAAATCCGAGGCCAGCTCGAGTCCACCCGCCGTCACGTCCGCGTCGCACGTCAGAGCCGCCGCAGCGCCCGCACCTGCACACGCACCGCCGCCGCCCTCGTGCCAAACCGGGGACCTGCGGGACATGATCAGCATGTATCTGCCCGGGGCGGAAGTGGCCGAGCAGACGGGCCAGAGCAGACTGCACCTGTCGCAGCACTACCAGAGCGCACCTGTGCACGCCACCACGATTAACGGCACCATCCCGTTATCGCACATGTAAATGAACtccttctttgtttttcttttttttctatcacacTGGACTCCTCTAGACTGGactatattaattttattttattattattatttttttttgtacagaattttttttttcttggtgagGGAAACTTGTAAAGGACTCaaggaaaaaagaacacaagcctttctctttctttccttccttctttctttttctttctttctttctttctttctttctttctttctatttaaaGAAGAAATTGTAGGAACACCaagcaagctttttttttttttttaattaaaatctatgAGATTTTTTTGGAATTGGAAAATGGGCAGTGTGTGCGTGGGATCGGGAGAAAGGGATAATAATcaatcaaatgttttattattgcaaTCAACTTTTGTACAGTATTTATCAAAGAAACATAACAATCAGTTGTAATGTTTGTATAAACTACAGTAAAGAAGTTTTTTATTAAGAAAGATAATGACAGAATTGACACTTATCATGCTCcaaactgtgcaaaaaaaaaaaaaaaaaaaaaagaaaagacgaAGTGGAAGTAAAGAGCAGGTCAAAATGTTTCAGCTTGAGGGTTAAATATTACTAAaccattttaatttagtttcaGATGATAAGCGCGTTAATTTATATCTTTTTGTTTAATCTCCAAGCCTCCATTTGTTAGAGCTATGAAGTttgtgttctttattttctcatgGTTTTGTAaattttctgtatatttactgtgagtttttattttttaaaaaaatttccgTAGTTGTATTTTAAAGAATTGTGGCCTGTAGGCAAATGCCAAACACGCGACATGTACATATCTGAACTAATAGCGACATAACAGTTACAATTtcagctgagtttttttttcaatatgcagtttgaaatgaataaatttttgAAATTTGGATATTTGAAA

Function

symbol description
sox2 Enables chromatin binding activity and sequence-specific DNA binding activity. Contributes to DNA-binding transcription factor activity. Acts upstream of or within several processes, including animal organ development; fin regeneration; and otic placode development. Predicted to be located in cytoplasm and nucleus. Predicted to be part of transcription regulator complex. Is expressed in several structures, including immature eye; nervous system; neural keel; neural rod; and presumptive structure. Human ortholog(s) of this gene implicated in breast cancer; nasal cavity cancer; and syndromic microphthalmia 3. Orthologous to human SOX2 (SRY-box transcription factor 2).

NR:

description
Transcription factor Sox-2

GO:

id name namespace
GO:0048592 eye morphogenesis biological_process
GO:0031101 fin regeneration biological_process
GO:0051091 positive regulation of DNA-binding transcription factor activity biological_process
GO:0005667 transcription regulator complex cellular_component
GO:0003700 DNA-binding transcription factor activity molecular_function

KEGG:

id description
K16796 SOX2; transcription factor SOX2 (SOX group B)

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026930243.2 True 2888 mRNA 0.44 1 11742948 11745835

Neighbor

gene id symbol gene type direction distance location
LOC117598431 NA coding downstream 221328 11520119 ~ 11521620 (-)
LOC113536618 LOC108271381 coding downstream 261439 11478608 ~ 11481509 (-)
psmd1 psmd1 coding downstream 266980 11428605 ~ 11475968 (-)
LOC113536755 acap2 coding downstream 505139 11196039 ~ 11237809 (-)
polr2h polr2h coding downstream 629359 11110545 ~ 11113589 (-)
mccc1 mccc1,LOC106613934 coding upstream 212443 11958278 ~ 11973216 (-)
LOC113536502 NA coding upstream 227846 11973681 ~ 11980660 (-)
s1pr4 LOC108270882 coding upstream 317160 12062995 ~ 12065799 (-)
enc3 enc3,LOC108270871,LOC108430247,LOC107593050,LOC107731329,LOC107755983,LOC107695631,LOC105900972 coding upstream 565771 12311606 ~ 12324367 (-)
tmprss9 tmprss9 coding upstream 588367 12334202 ~ 12353009 (-)
G179827 ttc14 non-coding downstream 180605 11558919 ~ 11562343 (-)
G179727 NA non-coding downstream 547275 11194437 ~ 11195673 (-)
G179487 NA non-coding downstream 1163488 10578420 ~ 10579460 (-)
G179485 NA non-coding downstream 1166916 10574536 ~ 10576032 (-)
G179478 NA non-coding downstream 1179496 10561403 ~ 10563452 (-)
G180111 NA non-coding upstream 250335 11996170 ~ 11996383 (-)
G180127 NA non-coding upstream 307446 12053281 ~ 12054861 (-)
G180278 NA non-coding upstream 327434 12073269 ~ 12074531 (-)
G180277 NA non-coding upstream 329403 12075238 ~ 12084317 (-)
G180273 NA non-coding upstream 429027 12174862 ~ 12300865 (-)
LOC117598402 NA other downstream 210915 11527957 ~ 11532033 (-)
LOC113536577 NA other downstream 224554 11510846 ~ 11518394 (-)
LOC117598430 NA other downstream 238986 11491707 ~ 11503962 (-)
G179803 ncl other downstream 322902 11409092 ~ 11420046 (-)
nppc anfc4 other downstream 496638 11243847 ~ 11246310 (-)
fxr1 fxr1 other upstream 117154 11862989 ~ 11889149 (-)
ncln ncln other upstream 274577 12020412 ~ 12032006 (-)
G180485 s1pr1,LOC107715096,LOC107592715 other upstream 971526 12717361 ~ 12720476 (-)
rc3h1a rc3h1,LOC108429496 other upstream 1006243 12752078 ~ 12782535 (-)
rpp21 LOC108271386 other upstream 1493888 13239723 ~ 13243200 (-)

Expression


Co-expression Network