XLOC_030953 (foxn4)


Basic Information

Item Value
gene id XLOC_030953
gene name foxn4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 19385503 ~ 19400166 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00060166
ATGGCAATCACTGCTGAAACTGTTCCAGCTCTCCGGCTTCATAGGGATTTCTATTCATTTTTTCCcgagataatgttttttttagggATTTATAGTATGTAAATATGGCTTTTATATAGAAGGATTTTTTTTCTGAACTCCAATTTCTGTGTATATTTGGACATAATTAAGTTGGACCGGACCCGAAAAGGCGCACCTGTGGACTGCACAAAGAAAACTAGGAAGAAAAGAGCAAGTCTTTGAGAAAGAAAGGTATTGattaaacaaaaacagtaaagACCAGTCGGGTGAGATGCTCTGACAGATAATCTTCGTGATTGTGCAGGCAAGGCAACAGCTGTCAGTCAGAGCGCGAGACCCCCTCCTCTCATCACGGCTCGCGCTGCGCGTGCACACAGTGCGCATGACCGTCCAGAGCAAACTGCAGGGACGAGGGAAATTTAAAAAACGGTTTTTTCGTGCGGGACAACAAGTGCCCCGACCAACACTAGAGCTTTCCTCCGTCTGGTTATCAAAGATTTTCTATAACCCAGAACAACATCATAACAAACAGAAGATGATTGAAAGTGGAATTACGACCAGGATGTCGGGAATTCATGAAAACCCCGGACAGAGTCACCACACCTCCGCACAAGACTACAGACTCCTGACTACAGACCCTTCGCAGCTGAAGGACGAACTGCCTGGTGATCTTCAATCTCTGTCCTGGCTCACCTCTGTGGATGTTCCCCGACTGCAGCAGATTGGGGGTGGACGGCCAGATTTCACTAGCTCTGCTCAAAGCAGCCTACTGGAGCGACAGACAGCTCAGTTGAACAGCATGACGGTAGCAGGAGGAGCAGGATCTGCGATTCATCTACAGAGTGAAATGCAGCACAGCCCTCTGGCCATCAACAGCATGCCCCAGTTTTCCCCTGGGTTTCCGTGTGCCGCATCAGTGTACCAGACGGCTCCTCAGCAGGTGCTCACTTTCACCCAAGCAAACCAACAGTGTTCACCCGGTGGACTGTATGGAAACTACAACAGCCAGAATTTGTTTCCTCAACCCCGGATTACTGCTCACAGCCAGGACCTGCAGCCCAAGTGTTTCCCCAAGCCCATCTACTCTTACAGCTGTCTTATTGCCATGGCTTTGAAGAACAGCAAAACGGGCAGTCTTCCAGTGAGTGAGATCTACAGCTTTATGAAAGAGCACTTCCCTTACTTCAAGACAGCACCTGACGGATGGAAGAACTCTGTACGACACAACTTGTCCTTGAACAAGTGCTTCGAGAAGGTAGAGAATAAGATGAGCGGCTCCTCCAGAAAGGGATGTCTTTGGGCGCTCAATCCGGCAAAGATTGACAAAATGGAGGAAGAGATGCAGAAATGGAAACGCAAAGATCTTCCAGCCATCCGTCGCAGCATGGCAAATCCAGATGAATTAGACAAACTCATCACAGACAGACCAGAGAGCTGCAGACAGAAGTCTGTTGACCCTGGCATGACCCGCCTGCCTAGCTGCCCACCAGGGCAGACCCTCCCACTAGCAGCTCAGATGCAACCACAGCCTGTGGTCACTCTGTCTCTGCAGTGCCTCCCCATGCACCAGCACCTTCAGCTGCAGCTCCAGAATCAGTCTCGCCTGGCTCCGTCCTCCCCGGCTCCTGCTCAGACACCCCCTCTCCACACCGTCCCTGACATGACAAACAGCTCGCTCCCCCAGCATCCTGCCAAGCAGCACACAGACTTCTACACGGTCCACACTGACGTCAATTCAGAGGTGGATGCCCTGGACCCCAGTATAATGGACTTTGCCTGGCAAGGAAACCTGTGGGAGGAGATGAAGGATGACAGCTTTAACCTGGAAGCATTAGGGACTCTCAGTAACTCTCCACTTCGGCTGTCCGACTGTGACCTGGACACCAGCAGCGTCACGCCAGTGTCCAGTGCAGGAGGACTGCCTTACCCAGACCTGCAGGTGACAGGCCTCTACTCTTCATACTCAGCTATTGATGCTCTCTCTAACCAGTACATGAACACACAAGGAGGAACAAAACCTATCGTTCTGCTTTAATTGCACTCACAGTAAATGAAGCAAGCTGAGCTTTACTCCGCAAGACCATCTCTAAAGTCGTTCAATCCTGGCTTCCGTGGTGTGTCACGAAACTCCAAAACATATCCTAAAAACGCAAATTTCCTACAAggcagccaaaaagaaaataattataattttccataatCAGAGTATACGCTGAACTGACATGAATGAACTTATGGTGGCATAAATTATAAAGACATTGAATGCATTATGTTAGTGAAGTATTTAGCGAGAGGGAGGATGATTTACAGTATATGTGGTGTAAGGATTTTTTCTATTACAGTCGGGTGTTGATTGCAATACTTGGATTGTGACCAAAATACAGTGTTGCTCTCATCATAAACCTAATGCAAATTGTGAGTTTTAACACTAaaggaacaaagaaaaaaaaaatcaacagtaaaACATGACTATGGGTGTGTTGCCAAGCTTTTTTCCCCATGtaccataaataaaactttcccCCTTTCTTTTGTCCATTTAACTGTTAGTCTTGTAATTGTAgctgtgtgtatttttgttgtaCTGTGATAGACACTGTATCTGCtctttaatgtttgtttattatttatatttatgaaaagagCTGAAATGGTGACATGAATCTTTGTTTATTGTACATATCGAAATATTTCAAATGCAGGCAATAAAATTCACATTCAGATCAAAAAA
>TCONS_00060167
atggcaccagCTCAGTTGAACAGCATGACGGTAGCAGGAGGAGCAGGATCTGCGATTCATCTACAGAGTGAAATGCAGCACAGCCCTCTGGCCATCAACAGCATGCCCCAGTTTTCCCCTGGGTTTCCGTGTGCCGCATCAGTGTACCAGACGGCTCCTCAGCAGGTGCTCACTTTCACCCAAGCAAACCAACAGTGTTCACCCGGTGGACTGTATGGAAACTACAACAGCCAGAATTTGTTTCCTCAACCCCGGATTACTGCTCACAGCCAGGACCTGCAGCCCAAGTGTTTCCCCAAGCCCATCTACTCTTACAGCTGTCTTATTGCCATGGCTTTGAAGAACAGCAAAACGGGCAGTCTTCCAGTGAGTGAGATCTACAGCTTTATGAAAGAGCACTTCCCTTACTTCAAGACAGCACCTGACGGATGGAAGAACTCTGTACGACACAACTTGTCCTTGAACAAGTGCTTCGAGAAGGTAGAGAATAAGATGAGCGGCTCCTCCAGAAAGGGATGTCTTTGGGCGCTCAATCCGGCAAAGATTGACAAAATGGAGGAAGAGATGCAGAAATGGAAACGCAAAGATCTTCCAGCCATCCGTCGCAGCATGGCAAATCCAGATGAATTAGACAAACTCATCACAGACAGACCAGAGAGCTGCAGACAGAAGTCTGTTGACCCTGGCATGACCCGCCTGCCTAGCTGCCCACCAGGGCAGACCCTCCCACTAGCAGCTCAGATGCAACCACAGCCTGTGGTCACTCTGTCTCTGCAGTGCCTCCCCATGCACCAGCACCTTCAGCTGCAGCTCCAGAATCAGTCTCGCCTGGCTCCGTCCTCCCCGGCTCCTGCTCAGACACCCCCTCTCCACACCGTCCCTGACATGACAAACAGCTCGCTCCCCCAGCATCCTGCCAAGCAGCACACAGACTTCTACACGGTCCACACTGACGTCAATTCAGAGGTGGATGCCCTGGACCCCAGTATAATGGACTTTGCCTGGCAAGGAAACCTGTGGGAGGAGATGAAGGATGACAGCTTTAACCTGGAAGCATTAGGGACTCTCAGTAACTCTCCACTTCGGCTGTCCGACTGTGACCTGGACACCAGCAGCGTCACGCCAGTGTCCAGTGCAGGAGGACTGCCTTACCCAGACCTGCAGGTGACAGGCCTCTACTCTTCATACTCAGCTATTGATGCTCTCTCTAACCAGTACATGAACACACAAGGAGGAACAAAACCTATCGTTCTGCTTTAA
>TCONS_00060168
AGACACACAAAATAACTGAAAAGTGAGGGTTGTCATAGCGACCCCAATTATTGCACTGAATAGAGAGTTTGTAGGGAAGTCTGGAGAGAATTCAAGATGGTTTCTCTGCTCTCTTGATGCTTAGAGCAAATGAAGAAATGGCTGAGTAAATAACTCTCCCTGCGCTGGATTAGATCTGAGGAGACTCCTGACTACAGACCCTTCGCAGCTGAAGGACGAACTGCCTGGTGATCTTCAATCTCTGTCCTGGCTCACCTCTGTGGATGTTCCCCGACTGCAGCAGATTGGGGGTGGACGGCCAGATTTCACTAGCTCTGCTCAAAGCAGCCTACTGGAGCGACAGACAGCTCAGTTGAACAGCATGACGGTAGCAGGAGGAGCAGGATCTGCGATTCATCTACAGAGTGAAATGCAGCACAGCCCTCTGGCCATCAACAGCATGCCCCAGTTTTCCCCTGGGTTTCCGTGTGCCGCATCAGTGTACCAGACGGCTCCTCAGCAGGTGCTCACTTTCACCCAAGCAAACCAACAGTGTTCACCCGGTGGACTGTATGGAAACTACAACAGCCAGAATTTGTTTCCTCAACCCCGGATTACTGCTCACAGCCAGGACC

Function

symbol description
foxn4 Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Involved in atrioventricular canal development and heart looping. Acts upstream of or within heart valve development; positive regulation of transcription, DNA-templated; and regulation of heart contraction. Predicted to be active in nucleus. Is expressed in several structures, including forebrain neural keel; nervous system; optic vesicle; pericardial region; and presumptive neural retina. Orthologous to human FOXN4 (forkhead box N4).

GO:

id name namespace
GO:0036302 atrioventricular canal development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0003170 heart valve development biological_process
GO:0035881 amacrine cell differentiation biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0008016 regulation of heart contraction biological_process
GO:0007399 nervous system development biological_process
GO:0010842 retina layer formation biological_process
GO:0001947 heart looping biological_process
GO:0060579 ventral spinal cord interneuron fate commitment biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000987 cis-regulatory region sequence-specific DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-990415-277 Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Involved in atrioventricular canal development and heart looping. Acts upstream of or within heart valve development; positive regulation of transcription, DNA-templated; and regulation of heart contraction. Predicted to be active in nucleus. Is expressed in several structures, including forebrain neural keel; nervous system; optic vesicle; pericardial region; and presumptive neural retina. Orthologous to human FOXN4 (forkhead box N4).

Ensembl:

ensembl_id ENSDARG00000010591

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00060166 False 2752 mRNA 0.46 10 19385503 19400166
TCONS_00060167 False 1260 mRNA 0.53 8 19386199 19394440
TCONS_00060168 True 614 processed_transcript 0.51 5 19391567 19395709

Neighbor

gene id symbol gene type direction distance location
XLOC_030952 NA coding downstream 48976 19334206 ~ 19336527 (-)
XLOC_030951 NA coding downstream 69855 19312775 ~ 19315648 (-)
XLOC_030950 fam214b coding downstream 333006 19021786 ~ 19052497 (-)
XLOC_030948 ranbp1 coding downstream 370914 19006701 ~ 19014589 (-)
XLOC_030949 NA coding downstream 376729 19008646 ~ 19008774 (-)
XLOC_030954 kctd10 coding upstream 36317 19436483 ~ 19444949 (-)
XLOC_030955 mmab coding upstream 89415 19489581 ~ 19494048 (-)
XLOC_030956 trpv4 coding upstream 395811 19795977 ~ 19833310 (-)
XLOC_030957 gltpa coding upstream 450662 19850828 ~ 19861766 (-)
XLOC_030958 git2a coding upstream 485889 19886055 ~ 19932621 (-)
XLOC_030942 NA non-coding downstream 601069 18783738 ~ 18784434 (-)
XLOC_030940 NA non-coding downstream 960866 18317903 ~ 18424637 (-)
XLOC_030959 NA non-coding upstream 560514 19960680 ~ 19963556 (-)
XLOC_030961 NA non-coding upstream 704842 20105008 ~ 20109265 (-)
XLOC_030967 NA non-coding upstream 889193 20289359 ~ 20297439 (-)
XLOC_030968 AL845326.1 non-coding upstream 1008670 20408836 ~ 20408952 (-)
XLOC_030969 NA non-coding upstream 1016556 20416722 ~ 20420371 (-)

Expression


Co-expression Network