HsaINT0145255 @ hg19
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:29158]
Coordinates
chr19:1112188-1112536:-
Coord C1 exon
chr19:1112401-1112536
Coord A exon
chr19:1112301-1112400
Coord C2 exon
chr19:1112188-1112300
Length
100 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GAGAGCAGCTCTGCCCCCAGGCC
3' ss Score
2.4
Exon sequences
Seq C1 exon
CTCGTGGCCATCATCTCGGAGGCCTCCAGCTCGGGTGTCTCCCTCCAAGCCGACCGCCGTGTCCAGAACCAGCGGCGCCGCGTGCACATGACCTTGGAGCTGCCGTGGAGCGCCGACCGCGCCATCCAGCAGTTCG
Seq A exon
GTGAGTCCGGCCCCGCCCCCAGCGCTGCCTGGCCCCGCCCCCAACATGGTCTCGGCCCCGCCCCCGCCTGGCCGGGCCCTGAGAGCAGCTCTGCCCCCAG
Seq C2 exon
GCCGCACCCACCGGTCCAACCAGGTCTCCGCGCCAGAGTATGTCTTCCTCATCTCGGAGCTGGCCGGGGAGCGCCGGTTCGCCTCCATCGTGGCCAAGCGCCTGGAGAGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064932-SBNO2:NM_014963:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.174 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(16.1=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(13.3=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:
CTCGTGGCCATCATCTCGGAG
R:
CAGACTCTCCAGGCGCTTG
Band lengths:
249-349
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)