XLOC_000661 (nfixa)


Basic Information

Item Value
gene id XLOC_000661
gene name nfixa
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 51896147 ~ 52086496 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00001124
CTGGTGCATGAAGGTCCCCATCGAGCCCCGGGCATCTCAGAGTGTTTCCTAGTGCCTGAATCCTACAGGGATGAATTCCACCCCTTCATCGAGGCTCTCCTCCCGCACGTGCGGGCGTTCTCCTACACCTGGTTCAACCTGCAGGCCCGTAAGCGCAAGTACTTTAAGAAGCACGAGAAGCGCATGTCCAAGGATGAGGAGCGCGCCGTCAAAGACGAACTCCTGGGCGAGAAGCCCGAGATCAAGCAGAAGTGGGCGTCGAGGCTGCTGGCCAAACTGCGCAAGGACATCCGGCCGGAGTTTCGCGAAGACTTCGTGCTCACCATCACGGGGAAGAAGGCACCGTGCTGCGTGCTCTCCAACCCGGATCAGAAGGGTAAGATCCGGCGCATCGACTGCCTGCGGCAGGCCGACAAAGTCTGGCGCCTGGACCTGGTGATGGTGATCCTGTTCAAGGGAAGCCCGCTGGAGAGCACAGACGGAGAGAGGCTGGTCAAGTCCCCGCAGTGCTCCAACCACAGCCTGTGCGTGCAGCCGCATCACATCGGAGTGTCTGTCAAGGAGCTGGACCTGTACCTGGCCTACTTCGTCCACATGCCAGAATCTGGCCAATCAGACAATTCCAGTCAACAAGGAGACTCGGACATCAAACCCCCACCAAACGGACATCTGAGCTTTCAGGACTGCTTCGTGACTTCGGGGGTGTGGAACGTAGCTGAGCTCGTACGAGTTTCTCAGACCCCTGTTGCAACAGCGTCAGGTCCCAATTTCTCCCTGGCGGATCTGGAAAGTCCCGGATATTACAACATCAACCAAGTAGCACTAGGCAGACGTTCACTCGCCTCTCCACCATCCACAAGCTCAAATAAGCGTAAGTCTATAGATGACAGTGAGATGGAGAGTCCTGTGGACGATGTTTTCTACAGCCGTTCTCCAGCCGGCACCAGCTCTCAGTCCAGCGGCTGGCCCAACGATGTGGACGCAgTGCAGCACCATTTGACGAATGTTCAAGAGAGGAAGATAAAGCATGAGAATGACGGCGTGCAGTTTCCTTACCATGGGAGTCCACGAGCCTCTGCCTCTGCTCTTCATTTCCCCGCTCCCTCCATCATCCAGCAGTCCAGTCCATACTTCACCCACCCCACCATCCGCTACCACCACCATCAGGACCCGCTCAAAGAGTTCGTCCAGTTCGTCTGTGCTGACGGCTCAGGGCAGCCGGGGcAGCATACCCAGCGCCAGGCTCCACAGCTTCCAACAGGTTTGTCGGCATCGGATCACGGGACAACAACTTTCTGA
>TCONS_00001125
agaAAAGTTTGGGCACAGCTGATATAAACAAATAGCTGAAATAAATtggaaacaaacacaaaacttAGCTCATAATAATAGTACCGTAATCATATCTGTTATCAGCAGTAAATGATAAGTGttgcatattattatttactgtactGTGCGCTTTTCGCAATGGATTCTGCCAGACTGGCCTTGAATGACACGAGTGTTCTGTATACATTACTCAAGTTTTGCGTGCTTCACCTTTCCTATCACTAGATGAATGCAGGCTGTTGCAAGACTGTAGTAGATTATAAACAACTTCTTCAGCTCGCCCTTTTATTAGATAAAGTGGAGAGAGAGCGAAGGGGGAGTGAAAGAAGGaaaggaaagttttttttttcctgctaaaGTTTGAGCTTTCACTTTCTGCCTTCGAGGCGGGGTTAGCGGCGAGAGCAGCATGGAGTAAACGCAAGGGGGGACGGCGAGCAATTGCAATGCAGAAACGCGGCGAACTTCCACTCAACTTCAAAACGCAAATCATTTCCCGCCTTTGAGACCGGCTAGCTATGTATTCCCCGTACTGCTTGACACAGGATGAATTCCACCCCTTCATCGAGGCTCTCCTCCCGCACGTGCGGGCGTTCTCCTACACCTGGTTCAACCTGCAGGCCCGTAAGCGCAAGTACTTTAAGAAGCACGAGAAGCGCATGTCCAAGGATGAGGAGCGCGCCGTCAAAGACGAACTCCTGGGCGAGAAGCCCGAGATCAAGCAGAAGTGGGCGTCGAGGCTGCTGGCCAAACTGCGCAAGGACATCCGGCCGGAGTTTCGCGAAGACTTCGTGCTCACCATCACGGGGAAGAAGGCACCGTGCTGCGTGCTCTCCAACCCGGATCAGAAGGGTAAGATCCGGCGCATCGACTGCCTGCGGCAGGCCGACAAAGTCTGGCGCCTGGACCTGGTGATGGTGATCCTGTTCAAGGGAAGCCCGCTGGAGAGCACAGACGGAGAGAGGCTGGTCAAGTCCCCGCAGTGCTCCAACCACAGCCTGTGCGTGCAGCCGCATCACATCGGAGTGTCTGTCAAGGAGCTGGACCTGTACCTGGCCTACTTCGTCCACATGCCAGGTCAGTGGGTTACACTCTCTTTCTTCCCTCCTACTGCTACTGATATGTTGATTTAAGAGCGGCCAGAATCTAGAGTAAGGCGACACCGCCGTAATCGCCGTCACATCCAGCACACTTACTGTATAAACACTTGCTtccagtgtgtgtgagagtgtgtgtgtgtgtgtgtgttctactGCCAGAGCTGAAATCAACCTGAAAACAGgctttatattaaaataaggggaatttatttctgtttattattattggtttattatttattatgtcttTTAGTTTTGCTTCTAGTTAGGAAGAAATGCTGTTGAGCTGCTGTCAGATCTCATGTTGACTTTTTGGAAATGTTTTTACATTCAATCAAGATCATTTTAACATTGTGAATTAGATTCTTTTCTTGTAAAAGGTAAACATTTGACATGGCTTTAGATATCATGCATGTATTTTGTTATCTGGTTATGCTCTTCTGTTTGGAAGAAATCCCCTCAAACTGTATTGAATTTTCAGGCTGAATTTGGGTGGGACGAATAATTAAAATCATTTCAACATTATTAATTGGCAGCAACAAAGAAAGTCATTTAAAAAATCCTGCAAATTGGTGTATCTCATTTATAAGCCATCTGCTTCTTAATTGGAAGAAATCCTATCAAACTGCATTGAAATCTTagc

Function

symbol description
nfixa Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within skeletal muscle fiber development. Predicted to be active in nucleus. Is expressed in central nervous system; muscle; notochord; paraxial mesoderm; and somite. Human ortholog(s) of this gene implicated in Marshall-Smith syndrome and Sotos syndrome 2. Orthologous to human NFIX (nuclear factor I X).

GO:

id name namespace
GO:0048741 skeletal muscle fiber development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007519 skeletal muscle tissue development biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0006260 DNA replication biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-080722-15 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within skeletal muscle fiber development. Predicted to be active in nucleus. Is expressed in central nervous system; muscle; notochord; paraxial mesoderm; and somite. Human ortholog(s) of this gene implicated in Marshall-Smith syndrome and Sotos syndrome 2. Orthologous to human NFIX (nuclear factor I X).

Ensembl:

ensembl_id ENSDARG00000043226

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00001124 False 1299 mRNA 0.57 9 51896147 52086496
TCONS_00001125 True 1764 mRNA 0.45 2 51903413 51961732

Neighbor

gene id symbol gene type direction distance location
XLOC_000660 NA coding upstream 31382 51850561 ~ 51864765 (+)
XLOC_000659 dand5 coding upstream 66856 51827046 ~ 51829291 (+)
XLOC_000658 NA coding upstream 70127 51752978 ~ 51826020 (+)
XLOC_000657 prdx2 coding upstream 166285 51721851 ~ 51729862 (+)
XLOC_000656 NA coding upstream 178932 51694751 ~ 51717215 (+)
XLOC_000662 rnf11a coding downstream 43668 52130164 ~ 52137313 (+)
XLOC_000663 get3 coding downstream 51032 52137528 ~ 52152993 (+)
XLOC_000664 best2 coding downstream 76146 52162642 ~ 52170135 (+)
XLOC_000665 NA coding downstream 259459 52345955 ~ 52346899 (+)
XLOC_000666 LO017718.1 coding downstream 266666 52353162 ~ 52363107 (+)
XLOC_000655 CU464066.1 non-coding upstream 212529 51683519 ~ 51683618 (+)
XLOC_000651 BX547996.1 non-coding upstream 430565 51465468 ~ 51465582 (+)
XLOC_000667 NA non-coding downstream 276906 52363402 ~ 52368198 (+)
XLOC_000668 NA non-coding downstream 278534 52365030 ~ 52367577 (+)
XLOC_000673 BX323839.1 non-coding downstream 408547 52495043 ~ 52510756 (+)

Expression


Co-expression Network