foxa1 (foxa1,LOC106611236)


Basic Information

Item Value
gene id foxa1
gene name foxa1,LOC106611236
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047604.1
NCBI id CM018550.1
chromosome length 29376037
location 13227905 ~ 13235196 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026933787.2
CCAACACCAACGCGCAAAAGCCCTCACCACTGACTGCACACGGCGTGCTGGAGCGAGCTGTGCAAACACCAGGTCTGGGTCCTGCATGTTGACGACCTGCACGTTTCCACCGTAATGCTGGGcgctgtgaaaatggaaggacaCGAAACTCCTGACTGGAGTAGCTATTACACCGATGCACAGGAGgtGTATTCGCCCATGACGAACAGCAGCATGAATACTGGACTGACTTCCATGAACAGTATGAACAGTTATATGAGTATGTCCACCAGTGGGAATATGACCTCTAGCTCCTTTAACATGTCCTATGCGAACCCTGCTCTGGGCGCTGGACTAAGCCCGGGAACTATGGCGGGGATGCAGTCGAGCAGCAGCGCAATGAACGGAATGGGTGGCGGGGTGGCGTCCATGGGCACGGCGCTCAGTCCCACAAACATGAATGCAATTTCAGCTCAACACACGTCTATGAACGCACTGAACCCTTACTCAAGCATCAGCCCCACTATGAGCCCTATGACATACGCCCAGCCTAACCTTAACAGGGCACGGGACAACAAGACTTTCAGGAGAAGTTATCCCCACGCCAAGCCTCCATACTCTTACATATCACTCATCACTATGGCTATCCAGCAGTCCCCCAGCAAGATGCTCACGCTTAGTGAGATCTATCAGTGGATAATGGATCTTTTTCCATACTACCGTCAAAACCAACAAAGGTGGCAAAACTCCATCAGACATTCGCTGTCTTTCAATGACTGCTTTGTGAAAGTGTCGAGGTCGCCAGATAAGCCGGGGAAAGGCTCTTACTGGACCCTGCATCCTGACTCTGGAAATATGTTTGAGAATGGCTGTTACCTCCGCAGACAGAAGCGTTTCAAATGTGATAAAAAGCTTGTGGGAAGTAAAGGGCCAGACGGAAGGAAGGAGCAGAGCGGGTCAGGCTCGCCCTCAAGTGACAGCTCGAGCACAAAGACCGGGCCCGTGGACTCCAACTCAATAAGCAGCGCAGCCCAGTCAGCAAGCCCTCAGAGCTTGGACCACAGAAATGGTAGCAGCAACTCTGAACTAAAGAGCAGTGGCCCACAGATACACCCCGTGGCCAACTCAGCCAcgtccctctcctctctccctctgcccCCACACTCTATGGCCCACGAGTCTCAGCTGCACCTAAAGGGAGACCCCCATTACTCTTTCAACCACCCGTTTTCCATCAATAATTTAATGTCCTCCTCGGAGCAACAACACAAACTGGACTTGAAAGCATATGAACAAGCGTTGCAATATTCATCTTATGGCTCAGGTATGTCTTCCAGCCTGCCTCTCGGCAGTGCTTCTATGGCCGGGAGAGCAAGCATGGACCCCTCGGCTTTAGAGGCGTCTTACTACCAAGGTGTGTATTCAAGGCCAGTTCTTAACACTTCTTAGTTTGGTCTTATAATTTACTGCACTCAACAATTGCTGAcagataaactttattttatttttgcatgcacCCTGTGCATTAAGGACTGTTGCTTTAaagtataataatgtgtatgtgtataataaaCTATTGTAAAGTGTTTCCCTGAATGATTGTATTACCCACCTATAAATAATTGCTAGTGTATTTAAAACGATTTTGAGCTTGTAAAATAATGTACTCCCCCAAACCAGTATGTCccatgtgttacagtgtgtgcaaATGAAGGTCAGTTATGGTCTTGTGGAATGTGTGCTGCAGGTAAAAGCAAAGTAACTGTCTGTTGCAGATGTATTTGGATGTTGTCATTTTCCTTGTTCTTTTCTGGGTTTTTATTTACCTCGTttgatgaaaacattttaatcccaAACTTGTATTGAAATAAGTTAATCAAACCTGAAAATGAATTGCGAATAAAACACGTTATTTCCTAA
>XM_026933788.2
CCAACACCAACGCGCAAAAGCCCTCACCACTGACTGCACACGGCGTGCTGGAGCGAGCTGTGCAAACACCAGGTCTGGGTCCTGCATGTTGACGACCTGCACGTTTCCACCGTAATGCTGGGcgctgtgaaaatggaaggacaCGAAACTCCTGACTGGAGTAGCTATTACACCGATGCACAGGAGgtGTATTCGCCCATGACGAACAGCAGCATGAATACTGGACTGACTTCCATGAACAGTATGAACAGTTATATGAGTATGTCCACCAGTGGGAATATGACCTCTAGCTCCTTTAACATGTCCTATGCGAACCCTGCTCTGGGCGCTGGACTAAGCCCGGGAACTATGGCGGGGATGCAGTCGAGCAGCAGCGCAATGAACGGAATGGGTGGCGGGGTGGCGTCCATGGGCACGGCGCTCAGTCCCACAAACATGAATGCAATTTCAGCTCAACACACGTCTATGAACGCACTGAACCCTTACTCAAGCATCAGCCCCACTATGAGCCCTATGACATACGCCCAGCCTAACCTTAACAGGGCACGGGACAACAAGACTTTCAGGAGAAGTTATCCCCACGCCAAGCCTCCATACTCTTACATATCACTCATCACTATGGCTATCCAGCAGTCCCCCAGCAAGATGCTCACGCTTAGTGAGATCTATCAGTGGATAATGGATCTTTTTCCATACTACCGTCAAAACCAACAAAGGTGGCAAAACTCCATCAGACATTCGCTGTCTTTCAATGACTGCTTTGTGAAAGTGTCGAGGTCGCCAGATAAGCCGGGGAAAGGCTCTTACTGGACCCTGCATCCTGACTCTGGAAATATGTTTGAGAATGGCTGTTACCTCCGCAGACAGAAGCGTTTCAAATGTGATAAAAAGCTTGTGGGAAGTAAAGGGCCAGACGGAAGGAAGGAGCAGAGCGGGTCAGGCTCGCCCTCAAGTGACAGCTCGAGCACAAAGACCGGGCCCGTGGACTCCAACTCAATAAGCAGCGCAGCCCAGTCAGCAAGCCCTCAGAGCTTGGACCACAGAAATGGTAGCAGCAACTCTGAACTAAAGAGCAGTGGCCCACAGATACACCCCGTGGCCAACTCAGCCAcgtccctctcctctctccctctgcccCCACACTCTATGGCCCACGAGTCTCAGCTGCACCTAAAGGGAGACCCCCATTACTCTTTCAACCACCCGTTTTCCATCAATAATTTAATGTCCTCCTCGGAGCAACAACACAAACTGGACTTGAAAGCATATGAACAAGCGTTGCAATATTCATCTTATGGCTCAGGTATGTCTTCCAGCCTGCCTCTCGGCAGTGCTTCTATGGCCGGGAGAGCAAGCATGGACCCCTCGGCTTTAGAGGCGTCTTACTACCAAGGGAAAAGTTGGCCGgttgaatgagagagagagggagagctgTGGGAGAGGGATGTGAGAGAGGGGACTCCCGGCTTGTGGCATCTCCACGGTAACCGGAGCGCAGGAGAACAGGAGCTCCACACTTCCTCCTGTCTTTCCTCTGTCACTCCGACCAACGGGCCATGCAACATGCTTCTGAGGACATAATCGATCAtgctcaaaaacacacacgggCCCCTGCGACACTGGCCACCTCAGCTGAAGGATGGAGAGGACTGGAGAGGGCTCATGAGGGGCATATCGTCAATACCAGGAATGTAAACCACCTCCATAGAATTGTTTAGTAGATTAGATTTCGGTAGGAGTCGAGGGATCTCTCTGGTCTGCTTATGGTTAAAAATTATCAACATATCCATgcgaaaaaaaagagaggctccAACTGTCTgctagaattattattattatttttttaatgaactaaAATTCAGCTGTTTTCTTATCATTAATATTATCCCATAAGTCTGGTCTAATGAAGGCGAGCCAGTGACATGACCAGTGACATCACCGGTGACATGTCTGTCCATAACCTTAGAATTAgcacaaaataaacagtttcAAAGTAAT

Function

symbol description
foxa1 Enables transcription cis-regulatory region binding activity. Acts upstream of or within axial mesoderm morphogenesis. Predicted to be located in nucleus. Is expressed in several structures, including central nervous system; chordo neural hinge; digestive system; endoderm; and liver primordium. Orthologous to human FOXA1 (forkhead box A1).

NR:

description
PREDICTED: forkhead box protein A1-A-like

GO:

id name namespace
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0048319 axial mesoderm morphogenesis biological_process
GO:0007389 pattern specification process biological_process
GO:0048665 neuron fate specification biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0051090 regulation of DNA-binding transcription factor activity biological_process
GO:0009790 embryo development biological_process
GO:0005667 transcription regulator complex cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0008134 transcription factor binding molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0019904 protein domain specific binding molecular_function
GO:0008301 DNA binding, bending molecular_function

KEGG:

id description
K09387 FOXA1, HNF3A; forkhead box protein A1, hepatocyte nuclear factor 3-alpha

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026933787.2 False 1899 mRNA 0.47 2 13232402 13235196
XM_026933788.2 True 1998 mRNA 0.50 3 13227905 13235196

Neighbor

gene id symbol gene type direction distance location
tyro3 tyro3 coding downstream 49613 13159302 ~ 13178292 (-)
mgaa LOC108270087 coding downstream 69880 13131355 ~ 13158025 (-)
mapkbp1 mapkbp1,LOC108270220 coding downstream 98158 13092012 ~ 13129747 (-)
atg14 atg14,zgc:113944,LOC107729264,LOC107693176,LOC106602264 coding downstream 149944 13072789 ~ 13077961 (-)
ctbp2a ctbp2a,LOC103037620,LOC108269758,LOC108428680,LOC107589601,LOC107692786,LOC107729277,LOC102781227,LOC103133568 coding downstream 372280 12825917 ~ 12855625 (-)
clec14a NA coding upstream 26042 13261238 ~ 13263301 (-)
sec23a sec23a,LOC107689296,LOC107589610,LOC107729285 coding upstream 66455 13301651 ~ 13316362 (-)
LOC117598229 srp54,LOC107729255,LOC107693187 coding upstream 84089 13319285 ~ 13322113 (-)
srp54 srp54,LOC107729255,LOC107693187,LOC107733904 coding upstream 88947 13324143 ~ 13330728 (-)
LOC113538944 npas3 coding upstream 190939 13426135 ~ 13650575 (-)
G164676 NA non-coding downstream 170918 13054744 ~ 13056987 (-)
G164672 NA non-coding downstream 180286 13047403 ~ 13047619 (-)
LOC117598239 NA non-coding downstream 311741 12910329 ~ 12916164 (-)
G164522 NA non-coding downstream 639078 12583737 ~ 12588827 (-)
G164523 NA non-coding downstream 644681 12582783 ~ 12583224 (-)
G165084 NA non-coding upstream 81597 13316793 ~ 13317066 (-)
G165088 NA non-coding upstream 82520 13317716 ~ 13319064 (-)
G165090 NA non-coding upstream 85748 13320944 ~ 13326687 (-)
LOC117598244 NA non-coding upstream 94443 13329639 ~ 13345648 (-)
G165082 cfl2 non-coding upstream 137581 13372777 ~ 13374399 (-)
tbpl2 tbpl2,LOC107729258,LOC107693101,LOC107586674 other downstream 141443 13079534 ~ 13086462 (-)
timm9 timm9,LOC107729247,LOC107693171,LOC107689314 other downstream 322303 12903776 ~ 12905602 (-)
fzd3b LOC108270052,LOC108428681,LOC107665105,LOC107729283,LOC107589599 other downstream 414241 12791829 ~ 12813664 (-)
rmnd1 rmnd1,LOC107733770,LOC107586664 other downstream 629745 12592859 ~ 12598160 (-)
trnal-cag_11 NA other downstream 1006267 12220590 ~ 12221638 (-)
trnal-uaa_1 NA other upstream 620192 13855388 ~ 13855792 (-)
G165451 LOC108269968 other upstream 953042 14188238 ~ 14190485 (-)
exd2 exd2,LOC107558452 other upstream 955495 14190691 ~ 14200797 (-)
nkx2.2a nkx2-2,nkx2.2a,LOC107558480,LOC107707659,LOC107737280,LOC108435751 other upstream 1491937 14727133 ~ 14772881 (-)
nenf nenf other upstream 1844500 15079696 ~ 15082205 (-)

Expression


Co-expression Network