DreINT0158052 @ danRer10
Intron Retention
Gene
ENSDARG00000007603 | stxbp2
Description
syntaxin binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2482]
Coordinates
chr3:52993568-52993890:+
Coord C1 exon
chr3:52993568-52993722
Coord A exon
chr3:52993723-52993805
Coord C2 exon
chr3:52993806-52993890
Length
83 bp
Sequences
Splice sites
5' ss Seq
CCTGTACTG
5' ss Score
-6.49
3' ss Seq
ACCCGCTCTCTTTCTCTAAGGGG
3' ss Score
7.88
Exon sequences
Seq C1 exon
GTCTTCACTCTGGACAACCCCAGTTCCTTCCACGCTTTCTACAGCCCAACTCAGACTAATCTAGATGACAAGAGCAGAATGATGGAGGCCATGGCTGAGCAGATCGCCACTCTCTGTGACACGCTGACGGAGTATCCAGCCATCCGATACCGCCT
Seq A exon
GTACTGAGCCACATTCACTCAGCACTTTGTGTTTGTTTTTTACTGATGTAAAATGATGTGTAAACCCGCTCTCTTTCTCTAAG
Seq C2 exon
GGGGCCAAAGGAGAATTTCAGCCTGGCTGAGATGGTGATGGATCGTCTGAATGCACACAAAGCAGACAATCCCAGAATGGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007603:ENSDART00000031234:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.172
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(26.0=100)
A:
NA
C2:
PF0099518=Sec1=FE(14.3=100)
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:
CACGCTTTCTACAGCCCAACT
R:
CGATCCATCACCATCTCAGCC
Band lengths:
170-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]