XLOC_006227 (syf2)


Basic Information

Item Value
gene id XLOC_006227
gene name syf2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007124.7
NCBI id CM002897.2
chromosome length 52186027
location 45431660 ~ 45443008 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00012216
TCGAACTGATATGCGTGACGCACGCCCTCTTCACGAAAAGCAACATGGCGTCTAGCGAGGagGTTGTTGCTCCCAGTAATGAAGAGGAGGTTACAGAGACTCCAGCAGCACAGAAGAGGGAAGAGAGACTTAGAAAGTTCAGAGAGCTTCATTTTAAGAGGAATGAGGCCCGTAAGCTGAATCATCAGGAGGTGGTGGAGGAGGACAAAAGATTGAAGCTGCCGTCAAACTGGGAGGCCAAAAAAGCACGTCTAGAGTATGAGCTCTTGGTTGACCAGAAGAAAAAGgagtgTGCGGAGCGTGGTGAAGATTACGACCGTGTGAAGCTCCTGGAGATCAGTGCTGAAGATGCAGAGAGAtgggagagaaagaaaaagaagagaaacCCTGATCCTGGATTCTCGGggtaTGCCGAGGCCCAGCTGAGACAGTACCAGAGATTGACGAAGCAGATCAAGCCTGATATGGAAAACTATGAGAAACAGAAAGAAGAGTGTGGAGAAGATTTCCACCCCACCTCCAACAGTCTGATTTACGGCACTCACGTTCCCTCTAAGGACAGCATCAACCGAATGGTGGACGACGTAGAGAAACAgaTCGAAAAGCGAGCGAAATACAGCCGCCGCAGAGCTTACAATGACGACGCTGACATCGATTACATCAACGAGAGAAACGCCAAGTTCAACAAGAAGGCCGAACGTTTCTACGGCAAATACACGGCAGAGATCAAGCAGAACCTGGAGAGAGGAACCGCCGTGTAAACCTACACCTGCATCCAGAACTCACAAACCAAGATTTTAAAGGAATGCTTCTtcttttttctcattttacttCTTTAAACGagtgtaaaagtaatttttctttcatattattttagtttaattcagCATTGTAAGAGTGGATATCTTCCTGTAAGTGTATTTGCTGTTTTGTGTATAAATCTATTCATTTCTTCAGCAGTTGACCTCTGGGtccattaaaaacattttcatatgaaA
>TCONS_00012217
AAAGCAACATGGCGTCTAGCGAGGagGTTGTTGCTCCCAGTAATGAAGAGGAGGTTACAGAGACTCCAGCAGCACAGAAGAGGGAAGAGAGACTTAGAAAGTTCAGAGAGCTTCATTTTAAGAGGAATGAGGCCCGTAAGCTGAATCATCAGGAGGTGGTGGAGGAGGACAAAAGATTGAAGCTGCCGTCAAACTGGGAGGCCAAAAAAGCACGTCTAGAGTATGAGCTCTTGGTTGACCAGAAGAAAAAGgagtgTGCGGAGCGTGGTGAAGATTACGACCGTGTGAAGCTCCTGGAGATCAGTGCTGAAGATGCAGAGAGAtgggagagaaagaaaaagaagagaaacCCTGATCCTGGATTCTCGGGTATAAAACAGTCATCTTGAATATTATTATACAACCTAATTAATCGGCTGCCTGCCTATTTGCTGAGAGCGAGAGGAAATATGGCTGCCATGTGTGActcaaaacatgtaaaaatgaaaacatgcagAGCTTGTGTTTCACGCCTGCTTATCGTCGGTTCTGGCAATTATTATCATTTGCCTTCTCCCTGTAAAAGCCCCTCCTCTACAGCTGGacgtgtgttttatttatttatttatttatttgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgcgttgtgcgtgtgtctgtgtgcg
>TCONS_00012218
atattttGAAATGTTAGCCTAACACTTGTCTTTATTTTTGCTAGatgtgtgtattttatgtatttgtcatGCATAATTATGATTACTTGCAAATTGTCGGCTTAGTGTATTTGTTTTCTGAACGTTGTTCTTATTGTCATTGTGGCTAACGTTAACAGTGCTAACGCCAGTCTCTGAAATTCTGTCAGTTTAatcccacacacagttcagtgtTTAAACTGCTGACACTGAATCAGATGTCTGATTAATTGTGTTGTGGATTGATTTACTAAATGTTACGTTGTTGCTCCCAGTAATGAAGAGGAGGTTACAGAGACTCCAGCAGCACAGAAGAGGGAAGAGAGACTTAGAAAGTTCAGAGAGCTTCATTTTAAGAGGAATGAGGCCCGTAAGCTGAATCATCAGGAGGTGGTGGAGGAGGACAAAAGATTGAAGCTGCCGTCAAACTGGGAGGCCAAAAAAGCACGTCTAGAGTATGAGCTCTTGGTTGACCAGAAGAAAAAGgagtgTGCGGAGCGTGGTGAAGATTACGACCGTGTGAAGCTCCTGGAGATCAGTGCTGAAGATGCAGAGAGAtgggagagaaagaaaaagaagagaaacCCTGATCCTGGATTCTCGGggtaTGCCGAGGCCCAGCTGAGACAGTACCAGAGATTGACGAAGCAGATCAAGCCTGATATGGAAAACTATGAGAAACAGAAAGAAGAGTGTGGAGAAGATTTCCACCCCACCTCCAACAGTCTGATTTACGGCACTCACGTTCCCTCTAAGGACAGCATCAACCGAATGGTGGAC

Function

symbol description
syf2 Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Orthologous to human SYF2 (SYF2 pre-mRNA splicing factor).

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0008380 RNA splicing biological_process
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0071014 post-mRNA release spliceosomal complex cellular_component
GO:0000974 Prp19 complex cellular_component
GO:0005634 nucleus cellular_component
GO:0005681 spliceosomal complex cellular_component
GO:0071007 U2-type catalytic step 2 spliceosome cellular_component
GO:0003674 molecular_function molecular_function

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040801-170 Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Orthologous to human SYF2 (SYF2 pre-mRNA splicing factor).

Ensembl:

ensembl_id ENSDARG00000004706

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00012216 False 998 mRNA 0.45 7 45431660 45443008
TCONS_00012217 False 714 lncRNA 0.46 4 45431696 45436397
TCONS_00012218 True 798 processed_transcript 0.43 6 45431734 45436972

Neighbor

gene id symbol gene type direction distance location
XLOC_006226 znfl1g coding upstream 94955 45332203 ~ 45336705 (+)
XLOC_006225 NA coding upstream 139906 45271632 ~ 45291754 (+)
XLOC_006224 NA coding upstream 416061 45009947 ~ 45015599 (+)
XLOC_006222 zbtb8os coding upstream 542710 44857087 ~ 44888950 (+)
XLOC_006223 CR786566.1 coding upstream 565950 44865594 ~ 44865710 (+)
XLOC_006228 NA coding downstream 12737 45455745 ~ 45472683 (+)
XLOC_006229 mgst3b coding downstream 33173 45476181 ~ 45482003 (+)
XLOC_006230 tmem50a coding downstream 42177 45485185 ~ 45495562 (+)
XLOC_006231 maco1b coding downstream 81467 45524475 ~ 45572062 (+)
XLOC_006232 ldlrap1b coding downstream 139383 45582391 ~ 45645167 (+)
XLOC_006221 NA non-coding upstream 595197 44822196 ~ 44836463 (+)
XLOC_006220 NA non-coding upstream 599134 44813904 ~ 44832526 (+)
XLOC_006234 BX914200.1 non-coding downstream 397419 45840427 ~ 45843939 (+)
XLOC_006235 NA non-coding downstream 428417 45871425 ~ 45876970 (+)
XLOC_006236 NA non-coding downstream 488149 45931157 ~ 45931536 (+)
XLOC_006237 BX936305.2 non-coding downstream 499150 45942158 ~ 45958468 (+)

Expression


Co-expression Network