XLOC_003124 (srsf6b)


Basic Information

Item Value
gene id XLOC_003124
gene name srsf6b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 1522127 ~ 1530865 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00006167
CGTAGCCTAGGCGCTTGCTTGGTGGCCATTCCGAAGAGCGTTTAATCCACAAGggttttgtttttgcctttgttTATTGGATATTGACCGAGGATAAGCATGCCGCGGGTGTACATCGGCAAGCTGAGCTATCATGTGCGGGAGAAGGACATCCAGAGGTTTTTTGGCGGCTACGGGAAACTCATGGAGATCGATCTTAAAAACGGGTATGGGTTTGTGGAGTTTGAGGACACCCGTGATGCAGATGATGCCGTGTATGAGCTGAACGGTAAAGAGCTGTGCGGGGAGCGTGTGATCGTGGAGCATGCCAGAGGACCGCGCCGGGACCGGGATGGATATGGTGGGGGTTATGGGGGCTTCGGGGGCCGCAGTAAGTTCAGTCTCATTGATCTCTACTGTAAAACTCTGCTCTCCTCCTTTTTTCCTCAGGTTCAaggaaaaaaagaggaagtgaatAACTGTTTCCTTAATTTACAGAAGCGCCTGCGTCCAGTGACTAACCGAATTTCTCTGTTAAAGTGTGCAGTGCCTGTCTTCTGGATGGACGCCGTTTAGGATCTAATGTATTTAATTGCCGACGGTCCTACAATGTGACCTTTTGTAAAATGGGGATTTCCTCCAAAATTGCTTTTGTAGTGTTGGCCCAATTTAAACGCCAAGGGTCATGAAAATGTGCAGTGTAATCTGAGTAAACATCAGGGAGAGTGACTAACTAAAGATGTTTACATGTCAGACGGCGGGCTGTTTACTCACTTTCTATTAGTCCAGCTCTAAATCTATTCCTACCAATGGATTGAGCAATTGATCT
>TCONS_00006168
GGCGCTTGCTTGGTGGCCATTCCGAAGAGCGTTTAATCCACAAGggttttgtttttgcctttgttTATTGGATATTGACCGAGGATAAGCATGCCGCGGGTGTACATCGGCAAGCTGAGCTATCATGTGCGGGAGAAGGACATCCAGAGGTTTTTTGGCGGCTACGGGAAACTCATGGAGATCGATCTTAAAAACGGGTATGGGTTTGTGGAGTTTGAGGACACCCGTGATGCAGATGATGCCGTGTATGAGCTGAACGGTAAAGAGCTGTGCGGGGAGCGTGTGATCGTGGAGCATGCCAGAGGACCGCGCCGGGACCGGGATGGATATGGTGGGGGTTATGGGGGCTTCGGGGGCCGCAGCAATAGTGGTTATAGCAGCAGGAGCCGAAGCGGAAGAGACAAATATGGCCCTCCGGTTCGCACAGAGTACCGGCTGATCGTGGAGAACCTGTCCAGTCGCTGCAGCTGGCAGGACCTTAAGGATTTCATGCGTCAAGCTGGAGAGGTGACCTATGCTGACGCGCACAAGGAACGGACCAATGAGGGCGTGATTGAGTTTCGCTCCCACTCTGATATGAGGAGAGCTTTGGACAAGCTGGACGGCACAGATATCAACGGCAGAAAAATCCGTCTGGTAGAGGACAAACCTCGCCGACGCCGCTCGTACTCTGCGAGCAGATCAAGGTCTCGTAGCAGACGCCGCTCTCGCAGCAGGAGCCGCAGGAGTTCACGAAGCCAATCCCGCTCCAGATCTCGCTCAAGGTCTCGCAGCAAGCACTCCCGATCCAGATCCGGTCGCAAATACCGCTCCAGGTCCAGATCTAGTAGAAAGTCTCACTCCAAATCTCACTCCAAGAAGTCAAAGTCTCGTTCTCGCTCGCGTACAGAAAAGTCCCGCTCTCGCTCCAGGAGTCGCTCCAAAGCAAAGTCCGAGAGGGATTCAAGAAGCCGCTCCAGGGAGAAATCAACCAGCAGGAAATCCCGAAGCAGATCCGCTTCTCCAAGAGAGAATGGAGACGGCGAGAGGGTGAAATCCACCTCCCGATCGCCGTCCCCAAAAGAAAACCGCCATCAGTCAGAATCGCCCCGCAAGCGTTCTGCATCTCGCTCCCGGTCCAAATCTCGTTCCCGTTCTAGATCTGCTTCTCAAGACTGATGCCAGCTTACAGAAGGAATATCGGTAACACTCAACACGATAACGTTACATTAGTGTTCGTtgatgcatttactaatatgaacaaataaataacaatacatttattacaggatttgttcatgttaactaatgaaAATACAGCTCATGTTAACTCGCACTGCTtcagctaatgttaacaagcatgaatgtgCATTAGTAGATGTTGAACTATCAATGATTAATGCTGTGCaagtattgttcatgttagtaaatgcattaatgaaaacttattataaagtgtgagtGAGTATATAaagcacacactgtaaaaagatcTGTTAATGGAgcgtttctgtattttgtggttTACATatggtttatttatggttgtgagttgcattatgggatgttgatctctgctctgttgagtTTTGATGTCAAATTCAACTCTacattttaacaaagtgacttttagtgacattttagtgGCTATAATGTATTAAAAAGAGAATATATAGAGGAATAAGTCTGTGAAATAGCAGTAAATGTACTGTctgtttattacaaggtgtttgtagcataatatacaacacagacaatatagcactgcagactattaaaaatgacaattttttttgcaACTTTAAGGTTCAAAGTTGTCAGAAAAAATCTAAATCTTCCATAATGCAACTCGAAAGCATAAATAATTAAACCTGAAACACAAAATATGAAACACTGCGCATTTATagacattatttacagtgtagttcagtgTTAAATGAATCATTAGCAGCCTATGAACATTCATTCAGTGCTTAAGAAGGCTGCAGCCCGGTGTAGTATTGATAAATGTGCTATTTTCAACATCGCATGAAAACTTAAACCGCATACAGAGAGGTTTTTGTCCAATGTGAGGCTCATCGAATCAGAATTTTGATATTAGTTGTAACTCTTGTGCTGTTGGTTGTGTTTGATTTGCTCCAGTTTGAGGTGACTTTAAAaggctcttttcttttttttaagctttAGTTTGAAGATTCAGAACTTAATTCAGTAGAATCATACTAGATTTGCAGCGTTTTGGTTGTTTTGTTTGTGGTGTAGTCAACAAGATATGACAGAAGGGAAGTTGACTGCTGCTTTTGTATAGTAATTCATTCCTCTGTCTTGCTGATTATAATTTTTCAACATTGTTTATGTAAGTGCTTTTGCTCCTCttgattttcttgtttttgtgtACAGTTTAATGCTTTAATTATTCACTCGCAGAGTCATTTCTGTCATGGAACTCATTTCAAATGGGTTTATGAAACATTTTTCACTGTGTTTTAGTTGAATAAACATTCAATTGGTTTTTca
>TCONS_00006169
GggttttgtttttgcctttgttTATTGGATATTGACCGAGGATAAGCATGCCGCGGGTGTACATCGGCAAGCTGAGCTATCATGTGCGGGAGAAGGACATCCAGAGGTTTTTTGGCGGCTACGGGAAACTCATGGAGATCGATCTTAAAAACGGGTATGGGTTTGTGGAGTTTGAGGACACCCGTGATGCAGATGATGCCGTGTATGAGCTGAACGGTAAAGAGCTGTGCGGGGAGCGTGTGATCGTGGAGCATGCCAGAGGACCGCGCCGGGACCGGGATGGATATGGTGGGGGTTATGGGGGCTTCGGGGGCCGCAAGTCCGGTGCGGGCTGAGTCCGAGTCCATTGAGGCTAAGATGACTGCCTGTCCCGTTTGGCCTTGGCTTTCACCTTACAATGTGTGTGTGACCTTTGCCCTTTGACCCTTGGCTGACCTAACCGGAAGCCATGATGACAGCTGCCTTTTGCCAATAGACCAGGGTGATGGCAATAGTGGTTATAGCAGCAGGAGCCGAAGCGGAAGAGACAAATATGGCCCTCCGGTTCGCACAGAGTACCGGCTGATCGTGGAGAACCTGTCCAGTCGCTGCAGCTGGCAGGACCTTAAGGATTTCATGCGTCAAGCTGGAGAGGTGACCTATGCTGACGCGCACAAGGAACGGACCAATGAGGGCGTGATTGAGTTTCGCTCCCACTCTGATATGAGGAGAGCTTTGGACAAGCTGGACGGCACAGATATCAACGGCAGAAAAATCCGTCTGGTAGAGGACAAACCTCGCCGACGCCGCTCGTACTCTGCGAGCAGATCAAGGTCTCGTAGCAGACGCCGCTCTCGCAGCAGGAGCCGCAGGAGTTCACGAAGCCAATCCCGCTCCAGATCTCGCTCAAGGTCTCGCAGCAAGCACTCCCGATCCAGATCCGGTCGCAAATACCGCTCCAGGTCCAGATCTAGTAGAAAGTCTCACTCCAAATCTCACTCCAAGAAGTCAAAGTCTCGTTCTCGCTCGCGTACAGAAAAGTCCCGCTCTCGCTCCAGGAGTCGCTCCAAAGCAAAGTCCGAGAGGGATTCAAGAAGCCGCTCCA
>TCONS_00006170
GtgattataatacatttttgttattttcatgTGCACTCGTCTGTAAATTTGGGGCTCACGTTAAACCTGTGCCGCCTCTTGTGTCGCTGGAGCGGTTATTATATTGCTGTCGGGTGAAGACCAGCAATGCCTGGACCCTTTCAGAGCGACCGATTGAACGGCAAATGTCaggatttcttttgtttttaatactcCACAGTAATTGTTCCCTACAGAACTATCCTGGTCTTATTTGGGTGTGATTTATATTCGATGGGGTGGGCTAGGCAGACTTCATTTTCTCATGCCTGAACTTGGTGCTTTATGATGTCTGAAGAGGTGGCCTTGTGTGCGCCCTTTGGATAGTGCTTAATTCTGTGCTAATTGATCTTTTGGCTTTTGTCTGAAGGCAATAGTGGTTATAGCAGCAGGAGCCGAAGCGGAAGAGACAAATATGGCCCTCCGGTTCGCACAGAGTACCGGCTGATCGTGGAGAACCTGTCCAGTCGCTGCAGCTGGCAGGACCTTAAGGATTTCATGCGTCAAGCTGGAGAGGTGACCTATGCTGACGCGCACAAGGAACGGACCAATGAGGGCGTGATTGAGTTTCGCTCCCACTCTGATATGAGGAGAGCTTTGGACAAGCTGGACGGCACAGATATCAACGGCAGAAAAATCCGTCTGGTAGAGGACAAACCTCGCCGACGCCGCTCGTACTCTGCGAGCAGATCAAG

Function

symbol description
srsf6b Predicted to enable mRNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome and mRNA splice site selection. Predicted to be active in nuclear speck. Human ortholog(s) of this gene implicated in proliferative diabetic retinopathy and spermatogenic failure 3. Orthologous to human SRSF6 (serine and arginine rich splicing factor 6).

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:0009888 tissue development biological_process
GO:0045292 mRNA cis splicing, via spliceosome biological_process
GO:0060026 convergent extension biological_process
GO:0005634 nucleus cellular_component
GO:0016607 nuclear speck 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-041219-1 Predicted to enable mRNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome and mRNA splice site selection. Predicted to be active in nuclear speck. Human ortholog(s) of this gene implicated in proliferative diabetic retinopathy and spermatogenic failure 3. Orthologous to human SRSF6 (serine and arginine rich splicing factor 6).

Ensembl:

ensembl_id ENSDARG00000016783

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00006167 False 808 lncRNA 0.47 2 1522127 1524414
TCONS_00006168 False 2496 mRNA 0.43 6 1522136 1530865
TCONS_00006169 False 1084 nonsense_mediated_decay 0.55 7 1522179 1529327
TCONS_00006170 True 713 lncRNA 0.49 2 1524910 1526754

Neighbor

gene id symbol gene type direction distance location
XLOC_003123 acot8 coding upstream 1181 1512571 ~ 1520946 (+)
XLOC_003122 ppp1r3db coding upstream 109771 1409622 ~ 1412356 (+)
XLOC_003121 vgll4b coding upstream 706911 807153 ~ 815216 (+)
XLOC_003120 tamm41 coding upstream 731823 779754 ~ 790304 (+)
XLOC_003119 vgll4b coding upstream 749668 769623 ~ 772459 (+)
XLOC_003125 ift52 coding downstream 2232 1533097 ~ 1546015 (+)
XLOC_003126 AL935272.1 coding downstream 15252 1546117 ~ 1546231 (+)
XLOC_003127 mybl2b coding downstream 20738 1551603 ~ 1574656 (+)
XLOC_003128 si:dkey-40c23.1 coding downstream 44570 1575435 ~ 1582456 (+)
XLOC_003129 si:dkey-40c23.2 coding downstream 53882 1584747 ~ 1618087 (+)
XLOC_003250 BX324177.11 misc downstream 9814938 11345803 ~ 11346099 (+)
XLOC_003255 BX324177.14 misc downstream 9842021 11372886 ~ 11373182 (+)
XLOC_003257 BX324177.13 misc downstream 9855497 11386362 ~ 11386658 (+)
XLOC_003260 BX324177.2 misc downstream 9887168 11418033 ~ 11418323 (+)
XLOC_003262 BX324177.15 misc downstream 9898528 11429393 ~ 11429689 (+)
XLOC_003118 FQ311892.1 non-coding upstream 791204 730807 ~ 730923 (+)
XLOC_003112 NA non-coding upstream 977933 543348 ~ 544194 (+)
XLOC_003109 NA non-coding upstream 1017298 474380 ~ 504829 (+)
XLOC_003110 NA non-coding upstream 1027594 489935 ~ 494533 (+)
XLOC_003107 CR855375.1 non-coding upstream 1150687 371322 ~ 371440 (+)
XLOC_003132 NA non-coding downstream 404819 1935684 ~ 1997410 (+)
XLOC_003133 NA non-coding downstream 420766 1951631 ~ 1952594 (+)
XLOC_003138 mir196c non-coding downstream 659756 2190621 ~ 2190730 (+)
XLOC_003139 NA non-coding downstream 667665 2198530 ~ 2205798 (+)

Expression


Co-expression Network