XLOC_013940 (srsf4)


Basic Information

Item Value
gene id XLOC_013940
gene name srsf4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 13410903 ~ 13420490 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00027842
aaatgctcgTTACAGGACACTTATTTTGAATCTCACATTTGTTGTTGCTAATTTTCCACGCCGAGCCACTGCACAGGAAAAATGTCTCGAGTTTATGTGGGAAAATTGAGCTACCGCGCCAGAGAGAAAGATGTAGAACGTTTTTTTAAAGGTTATGGGAAGATTCTGGAAGTAGATCTGAAAAATGGATATGGCTTTGTGGAGTTTGATGACCCCCGTGATGCAGATGATGCAGTGTATGATCTGAATGGCAAAGACCTTTGTGGGAAGAGAGTGATAGTGGAGCACACCATAGGACAGCGCCGAGATGGTGGCAACAGATCTGGAAGAAGTAATCGCtatggtcgtggtggtggaggaggaggaggggacaGGTACGGCCCACCGACACGCACAGATTACAGGCTGATTGTGGAAAATCTCTCTAGTCGATGCAGCTGGCAGGACCTGAAGGACTACATGCGTCAGGCTGGTGAGGTGACTTATGCTGACACTAATAAGGGTCGCAAAAATGAAGGGGTGATAGAGTTCAGACAATACTCGGATATGAAAAGAGCCCTGGAGAAGCTTGATGGCACTGAGGTCAATGGAAGAAAGATTCGGCTAATTGAGGACCGGCCTGGTGCCAGACGCCGGCGCTCTTACTCTCGCAGTGCCTccagGTCTCGATCCAGGAGCAGGAGGTCTCGCAGAAGCCGAAGCCACAGTCGAACCAGTAGCCGCTCTGGAGCCTCAGGTTCACGATCACGCAGCAGGTCAACCAGCAAGAAGGCTAAGAGCAGGAGCAGCAGGATGGAGGAGAGCAGTAACGGAGCTCGCAAGGGTGGTGATAGCGGCAGGGATAATAGCTTGAGCCGCAGCCCTCAAAATAAAAAGAGCAAACGTGAGAACAAGCGGGGTCGCTCTGATTCTCGGTCCAGATCTCGATCCAAATCGAGGAACGATAGGGATCTGTCCAGAGAGTCTGGGTCCAAATCTCAGGAGGCGAGCAAGAGTGGTGATGAAGGCAGAGCGGGAACACATCGTTCTAGAGCTCATTCTCGATCCAGATCACAAACACCACCAAATGCAGATCAGCGGAGGGAATCTAGATCCAGGTCTAGGTCCAGATCCAAATCACGCTCACATTCACGCTCACAGTCTTATTCCCGATCTCGATCCCGTTCGAGGTCTCGGTCCTAAATCCATTTCTGAAAGTCTTTCTCACTCAGTATTATTCATCTTGTTTTCCAGTCTAGCTAAACGTCTTTAAAACAAGAATatgtcttaaatgtttttttttttttacccctttaAATCTTTTTGTCACAATTGTGATAGATGTATGCttaaaacaaaacacagttaTCAACTGATAGGGGtaagaaaataaatagaattcAAGATATATTGTCTGAAAACAAGTCTGAATGTTACATTTGAGAAGCAAAATGGTGTATcttgtttttagatattttgtcCTCGGAAAAAGACAAGAATAGACTGAAAATTATGTTTTGCAGTCAGTGTCTAAATGTTGTTCTGCCCTTCATTTCTTTTTTTGAAGCTacttttttgtagttttgttttatcCTTTGTTGTCAAATAGACAAGCTAGTTATTAGGGAAATTGCCTGCTTATTCACAGTTATTATTTTCTGAAATTGTTAAccttatgttttattttagtagTGTTTTTCTTTGGAAATTGcttgcatatgttttattcataaaGACCGAGCCCTCAGTAGGTGTCCTAACCCTTTGCATTGTATACTTTAGACCTGTACCATAATTGTTGTTATGCTGGGGCAGAGTTTATGGTctttttaaattcagtttctccatgcaaaacaataaaaactgccTCACAA
>TCONS_00027843
AGGACACTTATTTTGAATCTCACATTTGTTGTTGCTAATTTTCCACGCCGAGCCACTGCACAGGAAAAATGTCTCGAGTTTATGTGGGAAAATTGAGCTACCGCGCCAGAGAGAAAGATGTAGAACGTTTTTTTAAAGGTTATGGGAAGATTCTGGAAGTAGATCTGAAAAATGGATATGGCTTTGTGGAGTTTGATGACCCCCGTGATGCAGATGATGCAGTGTATGATCTGAATGGCAAAGACCTTTGTGGGAAGAGAGTGATAGTGGAGCACACCATAGGACAGCGCCGAGATGGTGGCAACAGATCTGGAAGAAGTAATATATTCATTTACTTGCTTATTTCGGGatactatatatatatcaatcagtATTTCAGTTTTATATGAGAAATAAATGGTGAATTGTGCCAACATATTTTTTCAGGCTTTTCAGATGGAGAGTTTTGCACACAACATGCTCActatgatttttaattatttaaaaaaaaaaaaactagtttccagtatttctctgttgcaatcaggagatcacagtTTGAAAATACACCAATCTTTTCTTCTCTaaaggcttattatgcggtctgtCAATaccaaccatctttgctctgctcaataacATAGCGagtcggcatccatcagcctatctcagaaattctaaatatttaaaaggtTCATTTACCCATAAATTAATATTTCGTTACCTAATGTTTACTCAAGTCGTTTCAAACATTTATAAACTTATATctttacaataataaaatcatcatttattcaccctccatCTGTTCCAAACATTTTAAGCTACTTCTCCAAAAGTTACTGGAAAGATTaagttttaaagaatgctgaaagccAGTAGCTATTGACATCCAAAGATGGAAGTACTATAGAAGACAATGGCTACgagtttccaacattcctcaaaatatcatcttttgtgttcaacagaggacagAAACTCAAGCATGTTTGGAACATgtggagggtgaataaatgatgaccgaattttCACTGGTTTAAAAACTATTTGCCTTTAGGCATGTAATGTCATAATTGgcaattgtttcatttttattattattattttttaaatccaatTTACATTGACTCAGTTGATCTAAA
>TCONS_00027844
GTAAGTATgttgtttggtgaaatattttgAGTTCTTGAAGAACTAATCTGtccgttaaagggatagttcaccccaaaataattctgcaatcatttactcaccctattgtcattttgagacttttggagaaaaaaaaaaaacatctcaacaGACATCTCAGCAAATCTCTCTTTTTGTGTTGCACAGATGCCATtcgggtgagtaaatgatgacaggatttcaTGTTTATGTGAACTGTCCCTCTAAGTTATAGGGCAAAATTTAATCTGTAATTAATTGTACGCTAGTATAAGAACATCtgtatttaccatttaaaaaacaacaacttttctttcatttttccttGTTTATAGTTAAATCATTGTTTTTGAATAAGGCTAGTTTTAAGACTGTTGTCTTTTATCTGTCCTGAACTGTATGCATCTTATTCTCATCACTTTGAAGGTAATCGCtatggtcgtggtggtggaggaggaggaggggacaGGTACGGCCCACCGACACGCACAGATTACAGGCTGATTGTGGAAAATCTCTCTAGTCGATGCAGCTGGCAGGACCTGAAGGACTACATGCGTCAGGCTGGTGAGGTGACTTATGCTGACACTAATAAGGGTCGCAAAAATGAAGGGGTGATAGAGTTCAGACAATACTCGGATATGAAAAGAGCCCTGGAGAAGCTTGATGGCACTGAGGTCAATGGAAGAAAGATTCGGCTAATTGAGGACCGGCCTGGTGCCAGACGCCGGCGCTCTTACTCTCGCAGTGCCTccagGTCTCGATCCAGGAGCAGGAGGTCTCGCAGAAGCCGAAGCCACAGTCGAACCAGTAGCCGCTCTGGAGCCTCAGGTTCACGATCACGCAGCAGGTCAACCAGCAAGAAGGCTAAGAGCAGGAGCAGCAGGATGGAGGAGAGCAGTAACGGAGCTCGCAAGGGTGGTGATAGCGGCAGGGATAATAGCTTGAGCCGCAGCCCTCAAAATAAAAAGAGCAAACGTGAGAACAAGCGGGGTCGCTCTGATTCTCGGTCCAGATCTCGATCCAAATCGAGGAACGATAGGGATCTGTCCAGAGAGTCTGGGTCCAAATCTCAGGAGGCGAGCAAGAGTGGTGATGAAGGCAGAGCGGGAACACATCGTTCTAGAGCTCATTCTCGATCCAGATCACAAACACCACCAAATGCAGATCAGCGGAGGGAATCTAGATCCAGGTCTAGGTCCAGATCCAAATCACGCTCACATTCACGCTCACAGTCTTATTCCCGATCTCGATCCCGTTCGAGGTCTCGGTCCTAAATCCATTTCTGAAAGTCTTTCTCACTCAGTATTATTCATCTTGTTTTCCAGTCTAGCTAAACGTCTTTAAAACAAGAATatgtcttaaatgtttttttttttttacccctttaAATCTTTTTGTCACAATTGTGATAGATGTATGCttaaaacaaaacacagttaTCAACTGATAGGGGtaagaaaataaatagaattcAAGATATATTGTCTGAAAACAAGTCTGAATGTTACATTTGAGAAGCAAAATGGTGTATcttgtttttagatattttgtcCTCGGAAAAAGACAAGAATAGACTGAAAATTATGTTTTGCAGTCAGTGTCTAAATGTTGTTCTGCCCTTCATTTCTTTTTTTGAAGCTacttttttgtagttttgttttatcCTTTGTTGTCAAATAGACAAGCTAGTTATTAGGGAAATTGCCTGCTTATTCACAGTTATTATTTTCTGAAATTGTTAAccttatgttttattttagtagTGTTTTTCTTTGGAAATTGcttgcatatgttttattcataaaGACCGAGCCCTCAGTAGGTGTCCTAACCCTTTGCATTGTATACTTTAGACCTGTACCATAATTGTTGTTATGCTGGGGCAGAGTTTATGGTctttttaaattcagtttctccatgcaaaacaataaa

Function

symbol description
srsf4 Enables mRNA 3'-UTR binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome and mRNA splice site selection. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in membrane and nucleus. Predicted to be integral component of membrane. Predicted to be active in nuclear speck. Orthologous to human SRSF4 (serine and arginine rich splicing factor 4).

GO:

id name namespace
GO:0006376 mRNA splice site selection biological_process
GO:0000380 alternative mRNA splicing, via spliceosome biological_process
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0045292 mRNA cis splicing, via spliceosome biological_process
GO:0005634 nucleus cellular_component
GO:0016607 nuclear speck cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003729 mRNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-591 Enables mRNA 3'-UTR binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome and mRNA splice site selection. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in membrane and nucleus. Predicted to be integral component of membrane. Predicted to be active in nuclear speck. Orthologous to human SRSF4 (serine and arginine rich splicing factor 4).

Ensembl:

ensembl_id ENSDARG00000105293

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00027842 False 1853 mRNA 0.44 6 13410903 13420490
TCONS_00027843 False 1124 mRNA 0.35 2 13410916 13413899
TCONS_00027844 True 1953 lncRNA 0.41 4 13414676 13420477

Neighbor

gene id symbol gene type direction distance location
XLOC_013939 lrp12 coding upstream 13608 13375838 ~ 13397295 (+)
XLOC_013938 NA coding upstream 161654 13230383 ~ 13249249 (+)
XLOC_013936 rims2b coding upstream 224081 13099541 ~ 13186822 (+)
XLOC_013937 NA coding upstream 295377 13115265 ~ 13115526 (+)
XLOC_013935 AL844521.1 coding upstream 465937 12944850 ~ 12944966 (+)
XLOC_013941 tmem200b coding downstream 394 13420884 ~ 13426991 (+)
XLOC_013942 NA coding downstream 210835 13631325 ~ 13635810 (+)
XLOC_013943 NA coding downstream 376102 13796592 ~ 13805873 (+)
XLOC_013944 BX530067.1 coding downstream 413389 13833879 ~ 13833993 (+)
XLOC_013945 tmem222b coding downstream 574073 13994563 ~ 14035892 (+)
XLOC_013928 NA non-coding upstream 1110012 12295450 ~ 12300891 (+)
XLOC_013922 CU928061.1 non-coding upstream 2132374 11278413 ~ 11278529 (+)
XLOC_013953 NA non-coding downstream 1430327 14850817 ~ 14871231 (+)
XLOC_013955 NA non-coding downstream 1605426 15025916 ~ 15027342 (+)

Expression


Co-expression Network