HsaINT0161416 @ hg19
Intron Retention
Gene
ENSG00000076944 | STXBP2
Description
syntaxin binding protein 2 [Source:HGNC Symbol;Acc:11445]
Coordinates
chr19:7706591-7707004:+
Coord C1 exon
chr19:7706591-7706739
Coord A exon
chr19:7706740-7706919
Coord C2 exon
chr19:7706920-7707004
Length
180 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGG
5' ss Score
0.53
3' ss Seq
GTGTCTGACCTCCCCGCCAGGGG
3' ss Score
8.38
Exon sequences
Seq C1 exon
GTGTTCTCCCTCGATGCTCCCCACAGCACCTACAACCTCTACTGCCCCTTCCGGGCAGAGGAGCGCACGCGGCAGCTCGAGGTGCTGGCCCAGCAGATTGCCACGCTGTGCGCCACCCTGCAGGAGTACCCGGCCATCCGCTACCGCAA
Seq A exon
GTGGGGACCCCACCCAGCCCCACCCCGATGCCGACCCCCCCTTAACCGCGTGCAACACCTAACCTTTAACCTCTCTTGTGACCCCAGCCCCGGCCCTACCCTGGCCCCTGACTCTCACCTTCAAACCCATCCTTGACCCCATCCCCTGATGATGTCCCCCGTGTCTGACCTCCCCGCCAG
Seq C2 exon
GGGCCCAGAGGACACAGCCCAGTTGGCCCACGCCGTCCTGGCCAAGCTGAACGCCTTCAAGGCAGACACTCCCAGTCTGGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076944-STXBP2:NM_001127396:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.138
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(42.6=100)
A:
NA
C2:
PF0099518=Sec1=FE(24.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCTCCCTCGATGCTCCC
R:
AGACTGGGAGTGTCTGCCTTG
Band lengths:
226-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)