XLOC_016813 (prpf38b)


Basic Information

Item Value
gene id XLOC_016813
gene name prpf38b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 45655294 ~ 45663945 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00032938
TTTCCGCCTCCCCTCTTCCGTGCGCCATCTTGTCCCCACAATTCGGTGTAACAGAGCGCTTCGCGTGCGTCTGCCTCCAACCCAGAGAATAAGAAACAAAACGACCTGAAAACACACTTGAATGAATTAAGAGACGTCGGTCCGCTTCTCGCGCACCTCGTCGGACGCGTTCCTTCGCGATATTCGTTAAGGTTAACGACTATTTTTGTCCGTTTTCTCATTTAATGGCGTTGTGAAGGAACTGCCATGGCGGGTAGTCAgcagcaacaacagcagcagGCCGTGAGCAAACCGACCGGCGGGAAACACGGCAATAATTTGCCATTATGGGGCAACGAGAAGACTATGAACCTCAACCCTATGATTCTGACAAACGTGCTTTCTTCACCCTACTTCAAGGTCCAGCTGTACGAGCTCAAGACGTACCACGAGGTGGTGGACGAGATTTACTTCAAGGTCAACCATGTGGAGCCATGGGAAAAAGGCAGCAGGAAGACAGCTGGGCAGACGGGAATGTGCGGAGGGGTTCGAGGAGTCGGGACAGGTGGAATCGTGTCCACGGCATTTTGTCTGCTGTATAAACTGTTCACACTAAAGCTGACACGGAAACAAGTGATGGGTCTTATCACTCACTCCGATTCACCCTATATCAGGGCATTGGGCTTCATGTACATCAGGTATACTCAACCTCCTCCTGACTTGGTTGACTGGTATGATGAGTTCCTTGACGACGAGGAGGAGCTGGACGTGAAAGCTGGAGGAGGGTGTGTTATGACGGTTGGAGAGATGCTTCGCTCCTTTCTGACCAAGCTGGAGTGGTTCTCAACATTGTTTCCAAGAATACCTGTACCTGTGCAGAAGGCAATTGATCAGCACATGAAGAGCCGACCGCGTAAACCCCCACAAAAAGATGagcaggaagaggaggaggaagaggccACAGCAGCACCAGCAGCCGATACAGGCAGGCATGGAGATAGGCGCCGTTCCAGGACACCTAGGAGAAGTCCAAGTCCCAGGAAATCCCAGAATCGCTCCCGGAGTCGCAGCCATCACAGAGAAAGGCATGGTGCTAGCTTTGATCATGAACTGGAGAGAGAACGAGACCGTCAGCGCAAGGAACGGGAAGGAAAGGACCGGGACAGAGATAGAGACAGGGACCGAGAGAGAGACAGGGAGAGAGACAGAGATAGACGACGTTCCAGAACTCCAGACCGAAACGCAGAACGCCGGCGGAGCAGAAGCAGAGAACGACGCCGGAGTCGCAGCACCAGCCGAGACAAGAGAACGGAGAGAAAAGACCGTGATAAAGACAGAGAggcagagagtgagagagagcgtAGTCGCAAGAAAGACAGGGAGCACCATAAAGATCGAGAGAGGTCAAAAGACAAGAGGAGTAAAGGAGAGGGAGAGGAGCGGAGGCACAAGGATGATAAGGAGGAGAAAAAACACAGGGAAGAAAAGAGAAGTAAACGCTCGAGAAGCAGAAGCAGAGACCGCAAACACAAAGCTGAGAGATCTAGCAAGAAACGCTCCCGCTCTGGCAGCAGGAGCAGGCAGGAAGCCGGGGAAGAGAAGAACAGGAAGCGGGAACGCAGCCATAGTAAGGATCGCCAACACAAGCGCAGTCGCAGCAAAGAGCGATCGCACCGTCGGGAATCCAGCAATGAACGAATACATGCAAGACAAGACCGCCCCAGTTCTGAATCTGGAGAACGAACAAACAGTGTTCGAGCAGATTCTCCCTGATCCAAGTTTGTcttctcccctctctctctctctctctccctctgcaACTTTATTCCGATCCCTCTCTTATTACTTTGTGTTCTTTTCTTTTAATCCCCTTGTTAAAAGGCAAAAGCCTGGCTTTTTTTCTGCACTGTTATCCACCACTTGTGtagatattaaaaatgtaattttctctCAGTTCCCCATTTACAAATGTCAGGACTCaagatgacattttaaaatattttttattatttcccttTTCTCCCAGATTTGTTTTCAGGATTTCCACAAATGGCTGTGTACATAGAGCTCAGAGAATGTTTTAAATTTCAACAGAGTGTCCACTGAGTTGAGTTTGTGGCACAGGGAGCTGAAAGCTATGCTGACATTGTGCTGTTTGATTCATTGCTCTGTTGCATCTCATTTTCTAATAAAATTGTATGGAATAGAA
>TCONS_00032939
gtttaggaAGTAATAATCTTTAGAGTTAAATTAACATGTACTACATCGGCGATGCTGTGTAATAAGAGCATGTGTAAGTGTTGTTTTTGTGATGTTTATGGTGTTAATGGTTTTCCTCCTCTTGTGATCAGGAGCTGGACGTGAAAGCTGGAGGAGGGTGTGTTATGACGGTTGGAGAGATGCTTCGCTCCTTTCTGACCAAGCTGGAGTGGTTCTCAACATTGTTTCCAAGAATACCTGTACCTGTGCAGAAGGCAATTGATCAGCACATGAAGAGCCGACCGCGTAAACCCCCACAAAAAGATGagcaggaagaggaggaggaagaggccACAGCAGCACCAGCAGCCGATACAGGCAGGCATGGAGATAGGCGCCGTTCCAGGACACCTAGGAGAAGTCCAAGTCCCAGGAAATCCCAGAATCGCTCCCGGAGTCGCAGCCATCACAGAGAAAGGCATGGTGCTAGCTTTGATCATGAACTGGAGAGAGAACGAGACCGTCAGCGCAAGGAACGGGAAGGAAAGGACCGGGACAGAGATAGAGACAGGGACCGAGAGAGAGACAGGGAGAGAGACAGAGATAGACGACGTTCCAGAACTCCAGACCGAAACGCAGAACGCCGGCGGAGCAGAAGCAGAGAACGACGCCGGAGTCGCAGCACCAGCCGAGACAAGAGAACGGAGAGAAAAGACCGTGATAAAGACAGAGAggcagagagtgagagagag
>TCONS_00032940
GTCCCCACAATTCGGTGTAACAGAGCGCTTCGCGTGCGTCTGCCTCCAACCCAGAGAATAAGAAACAAAACGACCTGAAAACACACTTGAATGAATTAAGAGACGTCGGTCCGCTTCTCGCGCACCTCGTCGGACGCGTTCCTTCGCGATATTCGTTAAGGTTAACGACTATTTTTGTCCGTTTTCTCATTTAATGGCGTTGTGAAGGAACTGCCATGGCGGGTAGTCAgcagcaacaacagcagcagGCCGTGAGCAAACCGACCGGCGGGAAACACGGCAATAATTTGCCATTATGGGGCAACGAGAAGACTATGAACCTCAACCCTATGATTCTGACAAACGTGCTTTCTTCACCCTACTTCAAGGTCCAGCTGTACGAGCTCAAGACGTACCACGAGGTGGTGGACGAGATTTACTTCAAGGTCAACCATGTGGAGCCATGGGAAAAAGGCAGCAGGAAGACAGCTGGGCAGACGGGAATGTGCGGAGGGGTTCGAGGAGTCGGGACAGGTGGAATCGTGTCCACGGCATTTTGTCTGCTGTATAAACTGTTCACACTAAAGCTGACACGGAAACAAGTGATGGGTCTTATCACTCACTCCGATTCACCCTATATCAGGGCATTGGGCTTCATGTACATCAGGTATACTCAACCTCCTCCTGACTTGGTTGACTGGTATGATGAGTTCCTTGACGACGAGGAGGTATGTCGCCACGGGAGCTGGACGTGAAAGCTGGAGGAGGGTGTGTTATGACGGTTGGAGAGATGCTTCGCTCCTTTCTGACCAAGCTGGAGTGGTTCTCAACATTGTTTCCAAGAATACCTGTACCTGTGCAGAAGGCAATTGATCAGCACATGAAGAGCCGACCGCGTAAACCCCCACAAAAAGATGagcaggaagaggaggaggaagaggccACAGCAGCACCAGCAGCCGATACAGGCAGGCATGGAGATAGGCGCCGTTCCAGGACACCTAGGAGAAGTCCAAGTCCCAGGAAATCCCAGAATCGCTCCCGGAGTCGCAGCCATCACAGAGAAAGGCATGGTGCTAGCTTTGATCATGAACTGGAGAGAGAACGAGACCGTCAGCGCAAGGAACGGGAAGGAAAGGACCGGGACAGAGATAGAGACAGGGACCGAGAGAGAGACAGGGAGAGAGACAGAGATAGACGACGTTCCAGAACTCCAGACCGAAACGCAGAACGCCGGCGGAGCAGAAGCA
>TCONS_00032941
ATTCGGTGTAACAGAGCGCTTCGCGTGCGTCTGCCTCCAACCCAGAGAATAAGAAACAAAACGACCTGAAAACACACTTGAATGAATTAAGAGACGTCGGTCCGCTTCTCGCGCACCTCGTCGGACGCGTTCCTTCGCGATATTCGTTAAGGTTAACGACTATTTTTGTCCGTTTTCTCATTTAATGGCGTTGTGAAGGAACTGCCATGGCGGGTAGTCAgcagcaacaacagcagcagGCCGTGAGCAAACCGACCGGCGGGAAACACGGCAATAATTTGCCATTATGGGGCAACGAGAAGACTATGAACCTCAACCCTATGATTCTGACAAACGTGCTTTCTTCACCCTACTTCAAGGTCCAGCTGTACGAGCTCAAGACGTACCACGAGGTGGTGGACGAGATTTACTTCAAGGTCAACCATGTGGAGCCATGGGAAAAAGGCAGCAGGAAGACAGCTGGGCAGACGGGAATGTGCGGAGGGGTTCGAGGAGTCGGGACAGGTGGAATCGTGTCCACGGCATTTTGTCTGCTGTATAAACTGTTCACACTAAAGCTGACACGGAAACAAGTGATGGGTCTTATCACTCACTCCGATTCACCCTATATCAGGGCATTGGGCTTCATGTACATCAGGTATACTCAACCTCCTCCTGACTTGGTTGACTGGTATGATGAGTTCCTTGACGACGAGGAGGTATGTCGCCACGGATGGCCCTTGTGATGCGGGTGGATTGGATATAGGGTGCGCTCCACACTCTTGGCTGACGTTCGTG
>TCONS_00032942
CGGTGTAACAGAGCGCTTCGCGTGCGTCTGCCTCCAACCCAGAGAATAAGAAACAAAACGACCTGAAAACACACTTGAATGAATTAAGAGACGTCGGTCCGCTTCTCGCGCACCTCGTCGGACGCGTTCCTTCGCGATATTCGTTAAGGTTAACGACTATTTTTGTCCGTTTTCTCATTTAATGGCGTTGTGAAGGAACTGCCATGGCGGGTAGTCAgcagcaacaacagcagcagGCCGTGAGCAAACCGACCGGCGGGAAACACGGCAATAATTTGCCATTATGGGGCAACGAGAAGACTATGAACCTCAACCCTATGATTCTGACAAACGTGCTTTCTTCACCCTACTTCAAGGTCCAGCTGTACGAGCTCAAGACGTACCACGAGGTGGTGGACGAGATTTACTTCAAGGTCAACCATGTGGAGCCATGGGAAAAAGGCAGCAGGAAGACAGCTGGGCAGACGGGAATGTGCGGAGGGGTTCGAGGAGTCGGGACAGGTGGAATCGTGTCCACGGCATTTTGTCTGCTGTATAAACTGTTCACACTAAAGCTGACACGGAAACAAGTGATGGGTCTTATCACTCACTCCGATTCACCCTATATCAGGGCATTGGGCTTCATGTACATCAGGTATACTCAACCTCCTCCTGACTTGGTTGACTGGTATGATGAGTTCCTTGACGACGAGGAGGTATGTCGCCACGGGTAATGCCTTCACCTCTCTCTTATTTCAAATGTACACAGTTATAACCAGACATATCCAGGCTGAATGC

Function

symbol description
prpf38b 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 precatalytic spliceosome. Orthologous to human PRPF38B (pre-mRNA processing factor 38B).

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:0071011 precatalytic spliceosome cellular_component
GO:0005634 nucleus cellular_component
GO:0005681 spliceosomal complex cellular_component

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040426-2878 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 precatalytic spliceosome. Orthologous to human PRPF38B (pre-mRNA processing factor 38B).

Ensembl:

ensembl_id ENSDARG00000053101

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00032938 False 2188 mRNA 0.49 6 45655294 45663945
TCONS_00032939 False 731 processed_transcript 0.51 2 45656144 45658746
TCONS_00032940 False 1229 nonsense_mediated_decay 0.52 6 45656236 45663914
TCONS_00032941 False 777 processed_transcript 0.51 5 45659375 45663905
TCONS_00032942 True 777 processed_transcript 0.50 4 45659935 45663902

Neighbor

gene id symbol gene type direction distance location
XLOC_016812 CR450720.1 coding downstream 24471 45629707 ~ 45630823 (-)
XLOC_016811 NA coding downstream 98630 45556180 ~ 45556664 (-)
XLOC_016810 gpsm2 coding downstream 144590 45491032 ~ 45510704 (-)
XLOC_016809 NA coding downstream 207003 45427658 ~ 45448291 (-)
XLOC_016808 NA coding downstream 239995 45413601 ~ 45415299 (-)
XLOC_016814 fam102ba coding upstream 1548 45665493 ~ 45691128 (-)
XLOC_016815 CU467828.1 coding upstream 80918 45744863 ~ 45744979 (-)
XLOC_016816 NA coding upstream 355416 46019361 ~ 46034111 (-)
XLOC_016817 NA coding upstream 1199090 46863035 ~ 46865562 (-)
XLOC_016818 si:ch211-226f6.1 coding upstream 1374458 47038403 ~ 47039762 (-)
XLOC_016805 NA non-coding downstream 428049 45225122 ~ 45227245 (-)
XLOC_016804 dre-mir-181b-1 non-coding downstream 452963 45202223 ~ 45202331 (-)
XLOC_016819 NA non-coding upstream 1426800 47090745 ~ 47099661 (-)
XLOC_016820 FP101908.1 non-coding upstream 1596692 47260637 ~ 47260753 (-)

Expression


Co-expression Network