HsaINT0145248 @ hg19
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:29158]
Coordinates
chr19:1116828-1117498:-
Coord C1 exon
chr19:1117322-1117498
Coord A exon
chr19:1116926-1117321
Coord C2 exon
chr19:1116828-1116925
Length
396 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGTCCTCTGCCGTCCCACAGTGC
3' ss Score
8.62
Exon sequences
Seq C1 exon
TGGGCCGAGGCCCTGAACGTGTTCCAGCAGGCGGCCGACTGGATCGGCCTGGAGTCGCGCAAGTCCCTGTGGGGCCAGTTCTGGTCGGCACACCAGCGCTTCTTCAAGTATCTGTGCATCGCAGCCAAGGTGCGCCGGCTGGTGGAGCTGGCCCGAGAGGAGCTGGCGCGAGACAAG
Seq A exon
GTGAGCGGCTGCGGCCTTCGAGGGCTGAGGGCGGCCGGGCCTGCAGGGGCGGAGGCTGCTCTTCTTCCAGGTCCTTCCTGGCCCCTCCCCAGACGTGGGCGGGGGCTGCACCCTGGTGGGTGAGAGACGCCCGGATGTCCGTCTTCCAATCAGAGCCAGCCAGGGTGTCAGAACAGCGGAGTGTGACCACACAGTGGGCAGCTCACCATCCCGAGACAGGCAGCCGGCAGACCCCCACCCAGCAGTGTGTGTTGTAGGGGGGCCGTGGCCCCTCCTGGGGAGGCGAGCACAGCAGCAGAGTGAGGGATGTGGCCATCACCCCAGGCCTGGCAGGTTCTGGCCCCACAGAGGCCCCACAGCAGGGCTGGTGGCTCACAGTCCTCTGCCGTCCCACAG
Seq C2 exon
TGCGTGGTCATCGGGCTGCAGTCCACGGGCGAGGCGCGCACGCGGGAGGTGCTGGGGGAGAACGATGGGCACCTCAACTGCTTCGTCTCGGCCGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064932-SBNO2:NM_014963:15
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=0.000
Domain overlap (PFAM):
C1:
PF139001=GVQW=PD(10.3=66.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGCCCTGAACGTGTTC
R:
TCAGCGGCCGAGACGAAG
Band lengths:
270-666
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)