foxa1 (foxa1,LOC106611236)


Basic Information

Item Value
gene id foxa1
gene name foxa1,LOC106611236
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035905.1
NCBI id CM008308.1
chromosome length 42966623
location 23365431 ~ 23368635 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007251890.3
GGCAAATGAGCCCGTGAAGTGGGCTGTACCGCTCTCTACGTAACAGCGAGGGGAAGATCTCCACAGCCCTCAGCTCACTGCGCTCCCAGCATTTCTTCAGTCCGCCCAAACCGCCGCGCAACCTCCCACCCCTGATTGGCGCACCATTCGCCGGAGCGCTTGGTGAAAACTTCTGTCTGAGAACTGCATGTTGACGACCTGTAGATTTCCACCATAATGCTAGGAGCAGTGAAAATGGAAGGACACGAAACTCCAGACTGGAGTAGTTATTACACCGATGCGCAAGAGGTGTACTCTCCCATGACAAACAGCAGCATGAACACTGGACTGAGCTCCATGAACAGTATGAACAGTTACATGAGTATGTCTACCAGTGGGAATATGACCTCTAGTTCCTTTAACATGTCTTATGCGAACCCTGCTCTCAGTGCTGGACTAAGCCCGGGGACTATGGCAGGGATGCAGTCGAGTGCAAGCAGCGCAATGAATGGAATGAGTGGCGGGGTATCATCCATGGGCACGGCACTCAGCCCCACCAACATGAATGCGATTTCAGCCCAGCACAGCTCCATGAATGCACTGAACCCCTACTCAAGCATCAGCCCCACTATGAGCCCCATGACATACGCTCAGCCCAGCCTCAACAGGGCACGGGACAACAAGACTTTCAGGAGAAGTTATCCTCATGCCAAGCCTCCATACTCCTACATCTCGCTCATCACCATGGCTATCCAGCAGTCACCCAGCAAGATGCTCACACTTAGTGAGATCTACCAGTGGATAATGGATCTTTTTCCATACTACCGTCAAAACCAACAAAGGTGGCAGAACTCCATCAGACACTCACTGTCTTTCAATGACTGTTTTGTCAAAGTGTCTAGGTCGCCCGACAAGCCAGGAAAAGGCTCTTACTGGACCCTGCATCCTGATTCTGGGAATATGTTTGAGAATGGCTGTTACCTCCGTAGACAGAAGCGCTTCAAATGTGACAGAAAGGTAGTAGGAAGTGGGAAAGGGCAAGATGGGAGAAAAGACCAGAATGGGTCAAGCTCGCCCTCGAGCGACAACTCAAACACAAAGACCGGGCACATGGACTCCAACTCCATAGCCAACGCAAACCAGTCCTCTAGCCCTCACAGCTTGGAGCACAGAAGCAGTACCACCAACTCTGAACTAAAGAGCAGCGGCCCACAGATACACCCCGTGGCCAGCTCAGCCACATCTCTCTCCTCTATCCCTTTGCCCCCGCACTCTATGGCCCATGAGTCTCAGCTGCACCTAAAGGGAGACCCCCATTACTCTTTCAACCACCCATTTTCCATCAATAATTTAATGTCCTCCTCGGAGCAACAGCACAAACTGGACTTGAAAGCTTACGAACAAGCATTGCAATATTCATCTTATGGCTCAGGTATGTCTTCCAGCCTGCCTCTAGGCAGTGCTTCCATGGCCGGGAGAGCCAGCATGGACCCCTCTGCTTTAGAGGCGTCTTACTACCAAGGTGTGTATTCAAGACCGGTTCTTAACACTTCTTAgttgcttctttttttgttgttgctgttcTTGTCATTATTTGCTGAACTCAGCCCTTGCTGAcagataaactttattttatttttgcatgcaCCCAGTGCATAAAGGACTGTTACtttaaagtataataatgtgtatgtgtataataaaatattgtaaagtgTTCCCCTGAATGATTGTATATCCCACCTATAAATCATTGCTAGTGTATTTAAGGCGATTTTAAGCTTGTAAAATAATGTTGTAATCCCCAAACGTGTAGACCCCTACCTACTATGATGTGTCCGTGTGTTACAATGTGCACGAATGAAGGTCAGTTATGGTCTTGTGGATCGCGCTgcaggtaaacaaacaaaaaaaaagaaaaagaaaaaaggtgaaGCACCTCTCTGCTGCAGATGTATTTGGATGTTGTCCTTTTACTCGTTCTTTTGGGTTTTATTTACCTCGTTTGAGAAGAACATTTCAATCCCAATTCTTGTACTGAAGTAAGTTAATCAAACGTGGAAATGCATTACGAATAAAACACGTATTTCTTAATCACG

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_007251890.3 True 2078 mRNA 0.47 3 23365431 23368635

Neighbor

gene id symbol gene type direction distance location
clec14a NA coding upstream 53065 23309045 ~ 23312366 (+)
sec23a sec23a,LOC107689296,LOC107589610 coding upstream 97569 23250660 ~ 23267862 (+)
srp54 srp54,LOC107729255,LOC107693187,LOC107733904 coding upstream 116582 23242171 ~ 23248849 (+)
npas3 npas3 coding upstream 210846 22857844 ~ 23154585 (+)
akap6 akap6 coding upstream 521053 22711082 ~ 22844378 (+)
tyro3 tyro3,LOC107693181,LOC107729301,LOC107586589,LOC107689305,LOC107589665 coding downstream 85366 23454001 ~ 23473086 (+)
LOC103028567 NA coding downstream 106624 23475259 ~ 23498557 (+)
LOC103030470 mapkbp1 coding downstream 137021 23505656 ~ 23549535 (+)
LOC103031726 tbpl2,LOC107729258,LOC107586674,LOC107693101 coding downstream 190417 23559052 ~ 23563050 (+)
atg14 atg14,zgc:113944,LOC106602264,LOC106611244 coding downstream 195491 23564126 ~ 23570689 (+)
G82606 NA non-coding upstream 138521 23225765 ~ 23226910 (+)
G82596 NA non-coding upstream 156632 23208495 ~ 23208799 (+)
G82588 NA non-coding upstream 159987 23204815 ~ 23205444 (+)
G82579 eapp,LOC107733856,LOC107729290 non-coding upstream 171141 23127953 ~ 23194290 (+)
G82748 NA non-coding downstream 104569 23473204 ~ 23473455 (+)
G82754 NA non-coding downstream 130084 23498719 ~ 23499013 (+)
G82753 NA non-coding downstream 130401 23499036 ~ 23552919 (+)
G82763 NA non-coding downstream 212513 23581148 ~ 23581751 (+)
G82766 NA non-coding downstream 221865 23590500 ~ 23590893 (+)
G82609 baz1a other upstream 134113 23230430 ~ 23231318 (+)
G82488 NA other upstream 1007296 22357644 ~ 22358135 (+)
ralgapa2 ralgapa2,LOC107687934 other upstream 1691993 21520907 ~ 21673438 (+)
G81763 NA other upstream 3691793 19673127 ~ 19673638 (+)
G81761 NA other upstream 3699384 19665736 ~ 19666047 (+)
timm9 timm9,LOC107729247,LOC107693171,LOC107689314 other downstream 506804 23875439 ~ 23877770 (+)
G82811 psma3,LOC107729246,LOC107725600 other downstream 541047 23909682 ~ 23973975 (+)
G82853 tulp4,LOC108428686,LOC107589648,LOC107734174,LOC107692724,LOC107742753,LOC107653590 other downstream 770754 24139389 ~ 24142232 (+)
ephx2 ephx2,LOC107733988,LOC107692411,LOC107653762 other downstream 1527259 24895894 ~ 24924815 (+)
LOC111193228 NA other downstream 1565529 24934164 ~ 24936186 (+)

Expression


Co-expression Network