HsaINT0145250 @ hg19
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:29158]
Coordinates
chr19:1114230-1116102:-
Coord C1 exon
chr19:1116020-1116102
Coord A exon
chr19:1114422-1116019
Coord C2 exon
chr19:1114230-1114421
Length
1598 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGC
5' ss Score
7.35
3' ss Seq
GACCCTGTCCTTCCCTGCAGGGC
3' ss Score
13.17
Exon sequences
Seq C1 exon
AGGCGTGTTCCTGTCGCTAATTCAGAAGCACTTTCCGTCCACCAAGAGAAAGCGGGACAGAGGAGCGGGCAGCAAGCGGAAAC
Seq A exon
GTAAGCCCTGCCCCCCATGGCCCCACCCACCCCTGCCCCTCTGCTTTCTCCCCCCGGGGGCTGGCTGGTCGCTCCCTGCTTCCCCCACTCCCCCGTCCACTCAGCCAAATGCAGGTCCTGTCCGTGCCAGGCAGGCTCAAGGCTCCGCTGCCAGTGGCAGGTCTTGCGTGGACCCTGCCATGGAACGCTTAGGGAAGAGGAAGCAACAGACAGCCTGAAGGACACAGACGTGGGTGCCGAGCGAGACCCGGGGGGCGGGACACGGACGCGGGTGCTGAGCGAGACCCCTCCCACCTTCCGTTTTCAGGGTCTCCACGGTCCCTTGGGGAGCCCATTGATAACCCCCAGGCTTCTGTCACAGGGAAGCCCAGAGCTGCCTGTCGAAGTCTGGTGTGTGGCCTCCCCAGGCACCCCGCGTGTCCACCATACTGGCCAGGCCTGAAAGGACGTTGGATATGGGTTTATTAATATTGTCCCGTTGGCTGGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCACCTGAGGTCAGGAGTTTAAGACCAGCCTGGCCAACATGGTGAGACCCTGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGTGGACGCCTATAATCCCAGCTACTTGGGAGGCTGAGGCAGGGGAATCGCTTGAACCTGAGAGGTGGAGATTGCAGTGAGCCGAGATCATGCCACTGCACTCCAACTTGGGTGACAGAAAAAACTCTTGTCTCAAAAAAATTAATAAAAATAAAATATTGGCTAGGTGCAGTGGGTCACGCCTGTTGTAATCCCAGCACTTTGGAAGGCTGAGGCGGGCAAATCACCTGAGGCCAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACTCCATCTCTACTAAAAATAGAAAAATTAGCCAGGTGTGGTGGTGCATGCTTGTAATACCAGCTGCTCAGGAGGCTGAGGCAGGGGAATTGCTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGCAACAGAGTGAAACTCCATCTCAAAAATAAATAAATAAGCCAGGCGTGGTGGTTCACGCCTATAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCACGAGGTCAGGAGATCGACACCATCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAATACAAAAGATTAGCCAGGCGTGGTGGTGGGCGCCTGTAATCCCACCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAATCCAGGAGGCAGAGAGTGCAGTGAGATGCCACCGTTCTCCAGCCTGGCGACAGAGTAAGACTCCGTCTCAAAAGAAAATAAATAAATAAAATATGGCCCCCCACACCGTACCCTCCTGGCCACAGGGCACGGGGTTCCCTAGAGGGCGTCCCTGGAGAACAGCTGAGCTGCTTGCCCAGAGGCAGGGGGTTCTCGGATGGACCTCCCCAGCTCGGACCACTGGCCTTGCTCTGTCCTGCTGCGTCTCCTCCACCTGCTCCTCCACCTTGCTGCGGTCTGGCCCTCGGTGACCCTGTCCTTCCCTGCAG
Seq C2 exon
GGCGACCTCGGGGACGCGGGGCCAAAGCCCCCCGGCTGGCGTGCGAGACAGCGGGCGTCATCCGCATCAGTGACGACAGCAGCACGGAGTCGGACCCTGGCCTGGACAGCGACTTCAACTCCTCCCCCGAGTCCCTGGTGGATGACGACGTTGTCATCGTTGATGCAGTCGGGCTCCCCAGTGACGACCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064932-SBNO2:NM_014963:17
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=0.450
Domain overlap (PFAM):
C1:
NO
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:
GGCGTGTTCCTGTCGCTAATT
R:
CCGGTCGTCACTGGGGAG
Band lengths:
273-1871
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)