DreINT0158023 @ danRer10
Intron Retention
Gene
ENSDARG00000056036 | stxbp1b
Description
syntaxin binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-060531-166]
Coordinates
chr5:28392813-28393264:+
Coord C1 exon
chr5:28392813-28392951
Coord A exon
chr5:28392952-28393154
Coord C2 exon
chr5:28393155-28393264
Length
203 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TAATTATTCCTGTCTGATAGGTG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GATCTAGCTATGGGCACAGATGCGGAGGGTGAGAAGATTAAAGATCCCATGAGAGCCATTGTACCCATTCTACTGGACGCTACTGTCACCATCATGGACAAGATCCGCATCATCCTGCTCTATATTTTCCTCAAGAATG
Seq A exon
GTAAGGAAGCCTGAAAATGGCCAATGCTTTGATTCTCTCTTTGTTTAGATGTGTGTGGGTAAGATGTGGGTGGTAAAGTTTGTGCACACAGTAGTCTTTACTAATATCACACAACAGTGAGAAAAACTGCCATAATGCTGCCCTTCAGGGATTCAGTGGCCGTTCAAACTCTGTAATCATGTGTAATTATTCCTGTCTGATAG
Seq C2 exon
GTGTGTCAGAAGAAAATCTCTGTAAGCTCCTGCAGCATGCTCAGATCCCTCCAGAGGACAGTGACATCATCTCCAACATGGCTCATATGGGGGTTCCCATTATTTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056036:ENSDART00000005638:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.3=100),PF140711=YlbD_coat=PD(1.0=2.1),PF0396210=Mnd1=FE(34.6=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.5=100),PF0396210=Mnd1=PD(15.8=56.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTAGCTATGGGCACAGATG
R:
GGAACCCCCATATGAGCCATG
Band lengths:
236-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]