DreINT0158044 @ danRer10
Intron Retention
Gene
ENSDARG00000007603 | stxbp2
Description
syntaxin binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2482]
Coordinates
chr3:53013050-53013330:+
Coord C1 exon
chr3:53013050-53013148
Coord A exon
chr3:53013149-53013244
Coord C2 exon
chr3:53013245-53013330
Length
96 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
AAATTGATGTTTCTCTGCAGAAT
3' ss Score
8.83
Exon sequences
Seq C1 exon
GGTGCTAATTCTGGAAAGAGTCTGCCTGACAGGAAAGAGCGCACAGAATCTACATATCAGCTCTCCCGCTGGATACCCGTCCTGAAAGATGTGATGGAG
Seq A exon
GTCAGCAAACTCTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTAAGTATTATTATGCTTATGTAAATTGATGTTTCTCTGCAG
Seq C2 exon
AATATCATTGATGACAAATGTGACAGGAAGCAGTGGCCATTCCTGTCTGAGCCTGCACCCATCACCACCACCGCAACTACAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007603:ENSDART00000031234:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.242 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGAAAGAGTCTGCCTGAC
R:
CTGACTGTAGTTGCGGTGGTG
Band lengths:
176-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]