HsaINT0161410 @ hg19
Intron Retention
Gene
ENSG00000076944 | STXBP2
Description
syntaxin binding protein 2 [Source:HGNC Symbol;Acc:11445]
Coordinates
chr19:7712048-7712397:+
Coord C1 exon
chr19:7712048-7712133
Coord A exon
chr19:7712134-7712239
Coord C2 exon
chr19:7712240-7712397
Length
106 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTGCCCCTGCCCTGCACAGTGC
3' ss Score
8.38
Exon sequences
Seq C1 exon
GACGCCGTGGAGGACCGGCTGGACAGGAACCTGTGGCCCTTCGTATCCGACCCCGCCCCCACGGCCAGCTCCCAGGCCGCTGTCAG
Seq A exon
GTGAGGCCCCGGGGCCGCCCCCGCCCACGCCTGGGTCTGTGTTAGGTGGGCGGCCTGGCGGCGGTGAGGGCCTCCTGCCTGGACTTTCTGCCCCTGCCCTGCACAG
Seq C2 exon
TGCCCGCTTCGGTCACTGGCACAAGAACAAGGCTGGCATAGAAGCCCGGGCGGGCCCCCGGCTCATCGTGTATGTCATGGGCGGTGTGGCCATGTCAGAGATGAGGGCCGCCTACGAGGTGACCAGGGCCACCGAGGGCAAGTGGGAGGTGCTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076944-STXBP2:NM_001127396:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(24.3=100)
A:
NA
C2:
PF0099518=Sec1=FE(46.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACCGGCTGGACAGG
R:
CAATGAGCACCTCCCACTTGC
Band lengths:
235-341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)