DreINT0158047 @ danRer10
Intron Retention
Gene
ENSDARG00000007603 | stxbp2
Description
syntaxin binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2482]
Coordinates
chr3:52988913-52989143:+
Coord C1 exon
chr3:52988913-52988962
Coord A exon
chr3:52988963-52989061
Coord C2 exon
chr3:52989062-52989143
Length
99 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
TGTGTTTGTTTTATATTCAGGTG
3' ss Score
9.97
Exon sequences
Seq C1 exon
AAATCCTCAGTGGAGTCATCAAGAGTGTGAAGAAAGATGGGGACTGGAAG
Seq A exon
GTAATATTACTACAGTATATTGAAGCTTTTGTCGTTAATCTATTTTCGGATGACTTTTGTGTTCCGATTAATTAACTGTTGTGTTTGTTTTATATTCAG
Seq C2 exon
GTGCTCATCGTTGATCATATCAGTATGCGGATTCTGTCCTCGTGCTGTAAAATGTCTGACATCATGGCAGAGGGTGTTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007603:ENSDART00000031234:2
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=PU(0.2=5.9)
A:
NA
C2:
PF0099518=Sec1=FE(13.8=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:
TCCTCAGTGGAGTCATCAAGAGT
R:
GTAACACCCTCTGCCATGATGT
Band lengths:
127-226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]