HsaINT0145261 @ hg19
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:29158]
Coordinates
chr19:1109505-1109776:-
Coord C1 exon
chr19:1109682-1109776
Coord A exon
chr19:1109598-1109681
Coord C2 exon
chr19:1109505-1109597
Length
84 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
CCCACCCCGTGCCGTGGCAGATC
3' ss Score
7.74
Exon sequences
Seq C1 exon
ACCTTGCTCCCGGTATCGAGGAGATCTACGAGGAGAGCCAGCAGGTGTTCCTGGCTCCCGGGCACCCGCAGGACGGGCAGGTGGTCTTCTACAAG
Seq A exon
GTCAGCAGGAAGCCCCACAGCCCCTCACACTCTGCCCACCCCGCCCCCACCACACTCACACCCCCCCACCCCGTGCCGTGGCAG
Seq C2 exon
ATCAGCGTGGACCGCGGCCTGAAGTGGGAGGACGCCTTTGCCAAGTCGCTGGCGCTGACGGGCCCCTATGACGGCTTCTACCTCTCCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064932-SBNO2:NM_014963:27
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:
PF138711=Helicase_C_4=PD(0.1=0.0)
A:
NA
C2:
NO
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:
GCTCCCGGTATCGAGGAGATC
R:
AGGTAGAAGCCGTCATAGGGG
Band lengths:
173-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)