HsaINT0161408 @ hg19
Intron Retention
Gene
ENSG00000076944 | STXBP2
Description
syntaxin binding protein 2 [Source:HGNC Symbol;Acc:11445]
Coordinates
chr19:7710083-7711230:+
Coord C1 exon
chr19:7710083-7710192
Coord A exon
chr19:7710193-7711134
Coord C2 exon
chr19:7711135-7711230
Length
942 bp
Sequences
Splice sites
5' ss Seq
GGGGTACGC
5' ss Score
6.3
3' ss Seq
CCTCCCTGCCCTGCCTGTAGGGC
3' ss Score
10.3
Exon sequences
Seq C1 exon
GTGTGAGTGAGGAGAACCTGGCCAAGCTGATCCAGCATGCCAATGTACAGGCGCACAGCAGCCTCATCCGTAACCTGGAGCAGCTGGGAGGCACTGTCACCAACCCCGGG
Seq A exon
GTACGCCAGGAGCGGGCATGGGGGGACCCTGGGAGAGGGTGCGGATCACAGCCGGGGCTCTGCAAGGCAGAGGGCCATTGGTGCACAGGCACGGTGTGGTTCCTGGCGTGGTGTGGTTGCTGGGAGGCCAAAAGCAGTGTTTCGGGTCTGGTCTGGGGCCCAGAGGACACTGGGGCCTCTCCCAGTCCCAGCTTACACAATAGGCAGGGGAAGTGAGACATGGTCGCTGCCAGGCTGGTCCTGGCAGTGGTGCAGTTGGGAGCGGGTGGTCTGAGTGCTAGAGGCAGGGAGTAGGGTCCCCAGCATGGGGGCTACACCACATTGTCTATCTGGGCTCCCAGGGGTCTCTGAGGGTCCCCCGCACCCATCCAGCACCCACACACAGCCATGTGTGTGCTTGACTCTTGGGTCAGCCTCTCCTGTCTCTCTCTGGCCCTGTGCGTCCCCCTCCAGGGTGCCCTCACCCCGTCCCCATCTCTCCCCCATCCCTCATCCATCTCGCTGTGCACTGTTTCTCCATATCTCTCTCTCTCACCCTTCTCTCTGCCTTCCCCTTTCTCTCTGTTCTCTGTCTTGCTCCCCTCCCCTCTCCGTCCCCCTTCTGTCCCCATCTTCCTCTCTCTGTTTCCTGCTTCATCTCTTGTCTCTCTCTTTGCCTTCATACTTTGTCTCACTGCTTCTTATCTCTTTGCCTATCTCTGCCTCTGTCTTTGTCTTTCTCTGGCTCGCTCTCTCTCCCTTTGGCTTTCTCTCTCCGTCTCTCTCTGGCTCACTGTTTCTCTCTCTCGCTTTCTTGCTGTCTCTCGCTCTCTCTCGCTCTCTGTTCCACTTCCCCATCTTTGCCTGCCATCCCCCACCCTACCAGCCACACCAGGCGCAGCCCCTCTGTGACCAGCCTCCTTCCCCTCAATCCCCCTGCTGCCCTCCCTGCCCTGCCTGTAG
Seq C2 exon
GGCTCGGGGACCTCCAGCCGGCTGGAGCCGAGAGAACGCATGGAGCCCACCTATCAGCTGTCCCGCTGGACCCCGGTCATCAAGGATGTAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000076944-STXBP2:NM_001127396:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.134 A=NA C2=0.469
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(17.4=100),PF146311=FancD2=PD(19.0=60.5)
A:
NA
C2:
PF0099518=Sec1=FE(15.0=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAACCTGGCCAAGCTGATC
R:
TTACATCCTTGATGACCGGGGT
Band lengths:
190-1132
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)