DreINT0158050 @ danRer10
Intron Retention
Gene
ENSDARG00000007603 | stxbp2
Description
syntaxin binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2482]
Coordinates
chr3:52990629-52990909:+
Coord C1 exon
chr3:52990629-52990704
Coord A exon
chr3:52990705-52990805
Coord C2 exon
chr3:52990806-52990909
Length
101 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
TCTGTCTATCCTGCTTTCAGCTT
3' ss Score
9.7
Exon sequences
Seq C1 exon
TCAGTTCATGCTCTGATTGCGGATTTCAGAGAGACAGCCTTCACTTACAAAGCAGCACACGTCTTCTTTACCGACA
Seq A exon
GTAAGAGAGATTGTTTTTCTGATTGCTTTGGTTGTTTTCCTTGATGGTTGTCTACAGTGGGTGTATTTATTATATTGTATATCTGTCTATCCTGCTTTCAG
Seq C2 exon
CTTGTCCTGATGGGCTTTTTGCTGAGATTGGCAGGTCGAGGGTTGCAAAGGTCATCAAAACTCTCAAGGAGATCAATGTGGCTTTCATACCGTATGAGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007603:ENSDART00000031234:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(12.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(17.3=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:
CAGTTCATGCTCTGATTGCGG
R:
TGAGACTCATACGGTATGAAAGCC
Band lengths:
178-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]