sox1b (sox1,LOC107746263,LOC107567792,LOC105927502,LOC103140368,LOC107676867,LOC107692134,LOC107718482,LOC103479789)


Basic Information

Item Value
gene id sox1b
gene name sox1,LOC107746263,LOC107567792,LOC105927502,LOC103140368,LOC107676867,LOC107692134,LOC107718482,LOC103479789
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047620.1
NCBI id CM018566.1
chromosome length 19313417
location 10696458 ~ 10698691 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026931732.2
CGCTTCGCTCTCATTTAGCGGCTGTCAAAGCGCATCATATGGCCGCTCTGCTACTAACTTTTCTCCCGCGTCGCCCAAAGTAGCTCACAGGCTTTTCACTGCACCGGATGAGCAAATCAAAAGCTGAAAAGAAAGGTAAAGAAAATAGCGACTTGTATCGTTTTGGATTGTATACCTGTTTCCTTGTTCTGTGGGAACCTTTTCTTCTCCGCGTGCGTGCCAGCGGTCAGGACAGGGACGCCGCGGCTTGGCTCCAAGAGTGAATGTTTCTCGCGTGTTGAGTGCGAAAGTTAAAGCCAGGTGAATGTATAGCATGATGATGGAGACGGACTTGCATTCCCCGGCACCCCAAACGAACACGAGTGCGGGGCACACGGGCCAAAATGCTGCGGGGAAACTGAGCCAGGAGCGCGTCAAGCGCCCCATGAACGCGTTCATGGTGTGGTCCCGCGGGCAGCGGCGGAAGATGGCACAGGAGAACCCCAAAATGCACAACTCGGAGATCAGCAAGAGGCTCGGGGCCGAGTGGAAGGTCATGTCCGAGGCGGAGAAGCGGCCTTTCATTGACGAGGCGAAGCGCCTGCGCGCCATGCACATGAAGGAGCACCCGGATTACAAGTACCGGCCACGCAGAAAGACCAAAACGCTGCTTAAAAAGGACAAATACTCCCTGGCCGGCGGGCTGCTCGCAGGCTCTGCCGGCGGTGGCGGTGTGACTCTGGGGATGAGCACAGCGCAGAGGTTAGAGAGTCCCGCGGGTCACGGCGGCGGCGCAGGGGCGGCGAGTTACGCACACGTGAACGGCTGGGCAAACGGCGCGTACACAGCAGCCGCTGCCGCAGCCATGATGCAGGAGGCGCAGTTAGCCTACGGGCAGCACGCAAGCGCTGGGGCCGCTCACCATCACGGACACCACCCGCATCACCATGGACACCACCACCCGCACCATCAGCACGCCGCCAGCGCGCAGTCCGTGCACCGCTACGACATGAGCGCGCTGCAGTACAGCCCCATGTCGAACTCTCCGAGCTACGTGAGCGCCTCGCCGTCGACCTACGCCGCCATGTCGTACACGCAGCACCAGAGCTCCGTCTCGGCGGCGGCGGGAGGCGTCGGCGCGCTCGGCTCGCTCGTGAAACCCGAGCCGAGCGCGAGCCCTCCTCTCAGCGCCGCGTCCCGCGCGCCCTGTCCCGGTGACCTGCGCGAGATGATCAGCATGTACTTACCGGCGGCGGAGGCTGGAGACGCGGCTGTTCAGAGCAGACTGCACGCGCTCCCGCAGCACTATCAGAGCACCGCAGCTGCCATTAACGGAACCGTCCCGCTGACGCACatttaaagaaagaagcaaactcATAAAACTGAACCCCATTTATTCACAAACAAGTAACCAAATATTTACCTCTTTTTAGATTATACATACCTGCTTTTTGTACAGAATGTTTTCTTGTAAATTTAAAGGTGGTTATTATTTAAGCCTTGCTTCACCGGTACTGTCAGATCAGAAGTCTTTTCTCCGGTTTGCCTACATTTCAGATTATAGCTTTAGGCCAATATGTGAAAAGAAAGGCGAAAGGGATACCAGCCTTTACACTAGATCATCTTGTGAACACTTAAgagtttgaaatatttttaatgattattatctGTGAACTACAGGTTTTAATACGCAGGACACTCCGGGGAACAAGTCAGAGTGAAAACACCTACTATATTTTAAAGCTTATTTTATTTGTCCAAAACCCGCAATTGTTTGGTTTGTAAACACGTGACTGagcctgtgtatttattctttcttttttcttttttttttttttggtcggTGTATTTTTCATTCTTGTAAATTGTGCAAATATGATAGAGCGAAAAAAAGTGATAGGTCTGAACAAACTGTAAATAGCtcgttgattcatttttcacttgattattattattattattattattattattattattattgcaaatagaaaagcaaagtttttttttttgcgttggGATGAAACGAATAAATTTCTCAGCTGTTGCTCTTATTCTGGTGTTAATTTGGTCTTTGCATCCACTAGCCACTCCAGTGTCCTGAGCCAAACCGCACTGTGAGCTCAGGGCAGGTAGAACAATACATAAATAATCAATCAGTAAATAAAACGCAAATTGGAAAATGAAACCGCAACAATGTGAACATATTGTGAAAATATTATAAGTTTTAGAGTCCAGTGTAGTCTATAGGA
>XM_034299961.1
GGTCGCTTCGCTCTCATTTAGCGGCTGTCAAAGCGCATCATATGGCCGCTCTGCTACTAACTTTTCTCCCGCGTCGCCCAAAGTAGCTCACAGGCTTTTCACTGCACCGGATGAGCAAATCAAAAGCTGAAAAGAAAGGTAAAGAAAATAGCGACTTGTATCGTTTTGGATTGTATACCTGTTTCCTTGTTCTGTGGGAACCTTTTCTTCTCCGCGTGCGTGCCAGCGGTCAGGACAGGGACGCCGCGGCTTGGCTCCAAGAGTGAATGTTTCTCGCGTGTTGAGTGCGAAAGTTAAAGCCAGGTGAATGTATAGCATGATGATGGAGACGGACTTGCATTCCCCGGCACCCCAAACGAACACGAGTGCGGGGCACACGGGCCAAAATGCTGCGGGGAAACTGAGCCAGGAGCGCGTCAAGCGCCCCATGAACGCGTTCATGGTGTGGTCCCGCGGGCAGCGGCGGAAGATGGCACAGGAGAACCCCAAAATGCACAACTCGGAGATCAGCAAGAGGCTCGGGGCCGAGTGGAAGGTCATGTCCGAGGCGGAGAAGCGGCCTTTCATTGACGAGGCGAAGCGCCTGCGCGCCATGCACATGAAGGAGCACCCGGATTACAAGTACCGGCCACGCAGAAAGACCAAAACGCTGCTTAAAAAGGACAAATACTCCCTGGCCGGCGGGCTGCTCGCAGGCTCTGCCGGCGGTGGCGGTGTGACTCTGGGGATGAGCACAGCGCAGAGGTTAGAGAGTCCCGCGGCCATGATGCAGGAGGCGCAGTTAGCCTACGGGCAGCACGCAAGCGCTGGGGCCGCTCACCATCACGGACACCACCCGCATCACCATGGACACCACCACCCGCACCATCAGCACGCCGCCAGCGCGCAGTCCGTGCACCGCTACGACATGAGCGCGCTGCAGTACAGCCCCATGTCGAACTCTCCGAGCTACGTGAGCGCCTCGCCGTCGACCTACGCCGCCATGTCGTACACGCAGCACCAGAGCTCCGTCTCGGCGGCGGCGGGAGGCGTCGGCGCGCTCGGCTCGCTCGTGAAACCCGAGCCGAGCGCGAGCCCTCCTCTCAGCGCCGCGTCCCGCGCGCCCTGTCCCGGTGACCTGCGCGAGATGATCAGCATGTACTTACCGGCGGCGGAGGCTGGAGACGCGGCTGTTCAGAGCAGACTGCACGCGCTCCCGCAGCACTATCAGAGCACCGCAGCTGCCATTAACGGAACCGTCCCGCTGACGCACatttaaagaaagaagcaaactcATAAAACTGAACCCCATTTATTCACAAACAAGTAACCAAATATTTACCTCTTTTTAGATTATACATACCTGCTTTTTGTACAGAATGTTTTCTTGTAAATTTAAAGGTGGTTATTATTTAAGCCTTGCTTCACCGGTACTGTCAGATCAGAAGTCTTTTCTCCGGTTTGCCTACATTTCAGATTATAGCTTTAGGCCAATATGTGAAAAGAAAGGCGAAAGGGATACCAGCCTTTACACTAGATCATCTTGTGAACACTTAAgagtttgaaatatttttaatgattattatctGTGAACTACAGGTTTTAATACGCAGGACACTCCGGGGAACAAGTCAGAGTGAAAACACCTACTATATTTTAAAGCTTATTTTATTTGTCCAAAACCCGCAATTGTTTGGTTTGTAAACACGTGACTGagcctgtgtatttattctttcttttttcttttttttttttttggtcggTGTATTTTTCATTCTTGTAAATTGTGCAAATATGATAGAGCGAAAAAAAGTGATAGGTCTGAACAAACTGTAAATAGCtcgttgattcatttttcacttgattattattattattattattattattattattattattgcaaatagaaaagcaaagtttttttttttgcgttggGATGAAACGAATAAATTTCTCAGCTGTTGCTCTTATTCTGGTGTTAATTTGGTCTTTGCATCCACTAGCCACTCCAGTGTCCTGAGCCAAACCGCACTGTGAGCTCAGGGCAGGTAGAACAATACATAAATAATCAATCAGTAAATAAAACGCAAATTGGAAAATGAAACCGCAACAATGTGAACATATTGTGAAAATATTATAAGTTTTAGAGTCCAGTGTAGTCTATAGGA

Function

symbol description
sox1 Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including interneuron migration; regulation of oligodendrocyte differentiation; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cellular response to leukemia inhibitory factor; generation of neurons; and lens morphogenesis in camera-type eye. Predicted to be part of chromatin.

NR:

description
PREDICTED: transcription factor SOX-1

GO:

id name namespace
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_026931732.2 True 2231 mRNA 0.50 1 10696458 10698688
XM_034299961.1 False 2150 mRNA 0.49 2 10696458 10698691

Neighbor

gene id symbol gene type direction distance location
tubgcp3 tubgcp3,LOC107692132,LOC107746265 coding downstream 134751 10529524 ~ 10561707 (-)
mcf2la mcf2l coding downstream 169582 10439948 ~ 10526876 (-)
arl11 arl11 coding downstream 297207 10397901 ~ 10399251 (-)
LOC113537273 kcnrg coding downstream 337024 10355226 ~ 10359434 (-)
LOC113537761 LOC108258610 coding downstream 460300 10217608 ~ 10236158 (-)
arhgef7b arhgef7,arhgef7b,LOC107718510,LOC107567796,LOC107676887 coding upstream 107744 10806435 ~ 10838961 (-)
eif5b eif5b,LOC102778822 coding upstream 151685 10850376 ~ 10870096 (-)
map2k7 map2k7,LOC107712243,LOC107692141 coding upstream 235454 10934145 ~ 10946702 (-)
pkn1a LOC108428230,LOC107603033,LOC107712223,LOC107676851,LOC107561874 coding upstream 250387 10949078 ~ 10995765 (-)
si:ch211-214c7.4 prr36,LOC108258951 coding upstream 302976 11001667 ~ 11019985 (-)
G373762 NA non-coding downstream 131534 10495636 ~ 10564924 (-)
LOC113537663 NA non-coding downstream 403880 10290637 ~ 10292578 (-)
G373719 dleu7 non-coding downstream 407085 10288380 ~ 10289373 (-)
G373714 NA non-coding downstream 427797 10255003 ~ 10268661 (-)
G373678 NA non-coding downstream 449638 10191996 ~ 10246820 (-)
G374040 NA non-coding upstream 229776 10928467 ~ 10929554 (-)
G374039 NA non-coding upstream 231048 10929739 ~ 10933407 (-)
G374091 sept3 non-coding upstream 369040 11067731 ~ 11067952 (-)
G374093 atf7ip non-coding upstream 385951 11084642 ~ 11120831 (-)
G374105 NA non-coding upstream 440492 11139183 ~ 11139811 (-)
cab39l cab39l,LOC107676861,LOC107718429 other downstream 261091 10422152 ~ 10435367 (-)
LOC117596103 LOC102201964,LOC102304430 other downstream 777679 9878843 ~ 9918779 (-)
tsga10 LOC108258346 other downstream 2085617 8591407 ~ 8610841 (-)
LOC113537606 nhlh2,LOC108258389,LOC103035065,LOC108434665,LOC107739819,LOC105019883 other downstream 2264020 8429562 ~ 8432438 (-)
timmdc1 timmdc1 other downstream 2367432 8320868 ~ 8329026 (-)
lipt1 lipt1 other upstream 172533 10871224 ~ 10872556 (-)
mzt1 mzt1,si:dkey-15d12.2,LOC107556706 other upstream 1380200 12078891 ~ 12084049 (-)
LOC113537246 NA other upstream 1926360 12625051 ~ 12630403 (-)
gyg2 gyg2 other upstream 2609022 13307713 ~ 13320530 (-)
G375428 NA other upstream 2740528 13439219 ~ 13439535 (-)

Expression


Co-expression Network