HsaINT0161411 @ hg19
Intron Retention
Gene
ENSG00000076944 | STXBP2
Description
syntaxin binding protein 2 [Source:HGNC Symbol;Acc:11445]
Coordinates
chr19:7712240-7712759:+
Coord C1 exon
chr19:7712240-7712397
Coord A exon
chr19:7712398-7712610
Coord C2 exon
chr19:7712611-7712759
Length
213 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
AAACCTCTGCCCCTGCACAGGCT
3' ss Score
6.68
Exon sequences
Seq C1 exon
TGCCCGCTTCGGTCACTGGCACAAGAACAAGGCTGGCATAGAAGCCCGGGCGGGCCCCCGGCTCATCGTGTATGTCATGGGCGGTGTGGCCATGTCAGAGATGAGGGCCGCCTACGAGGTGACCAGGGCCACCGAGGGCAAGTGGGAGGTGCTCATTG
Seq A exon
GTAAGTCACCAGGACTGGGACCCTGGGGTCTGGGGCTTGGGTTCCCGGGGCCTGGGCTTGTACCTTCTAGGTGTCTGGACTCCAGAGTCCTTGGAGTCAGGGACCTGGTTTGCTGAGGGACAGGGACAGCCCCACACCAGCCGGGACCGGGAGCCTGTCAAAGACGAAGGCAGCGCCCCCCAACATCTTCCCCAAACCTCTGCCCCTGCACAG
Seq C2 exon
GCTCCTCACACATCCTCACCCCGACCCGCTTCCTGGATGACCTGAAGGCACTGGACAAGAAGCTGGAGGACATTGCCCTGCCCTGACCCCTGGCCCCGCCCCCTACCCCTCCCTTTCCAGAGAAATAAACTCTTCCCGTCGCTCTGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076944-STXBP2:NM_001127396:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(46.1=100)
A:
NA
C2:
PF0099518=Sec1=PD(12.2=48.3)
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:
TTCGGTCACTGGCACAAGAAC
R:
CAGAGCGACGGGAAGAGTTTA
Band lengths:
297-510
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)