HsaINT0145254 @ hg19
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:29158]
Coordinates
chr19:1112401-1112948:-
Coord C1 exon
chr19:1112817-1112948
Coord A exon
chr19:1112537-1112816
Coord C2 exon
chr19:1112401-1112536
Length
280 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
GGCCCCTTCTTTCCCCCTAGCTC
3' ss Score
9.95
Exon sequences
Seq C1 exon
ATGACCGGCAGGAAAGGCCGCGTGGTGTCCAGGCCCGACGGGACGGTGGCCTTCGAGTCGCGGGCAGAGCAGGGTCTGTCCATCGACCACGTGAACCTCAGGGAGAAGCAGCGCTTCATGAGCGGCGAGAAG
Seq A exon
GTGCGGGGCTGCAGTGCACTGGGCGCGGCCCACGGGACCCAAGAGGCACAGAGGGGCCCAAGGGTCCCCGGGGACTGTGGACCCGCGCACTTCTGGAGTGTGTGTGTGCCAGGTGCGGGCGCGAGTGGCCGTGTGGCGGGTGGTGTCCGCGCCCCGCAGGCCTCTCGCTGCCCCGGGACGTCCTGGTGACCTGGAGCGGGGGCCTAGTGGGTGAGGAGGTGGCGGCAACGCTGGGGCGGGCCTTGCACCAACCGTGTCCCGGCCCCTTCTTTCCCCCTAG
Seq C2 exon
CTCGTGGCCATCATCTCGGAGGCCTCCAGCTCGGGTGTCTCCCTCCAAGCCGACCGCCGTGTCCAGAACCAGCGGCGCCGCGTGCACATGACCTTGGAGCTGCCGTGGAGCGCCGACCGCGCCATCCAGCAGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064932-SBNO2:NM_014963:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.341 A=NA C2=0.174
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(15.4=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(16.1=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:
ATGACCGGCAGGAAAGGC
R:
CGAACTGCTGGATGGCGC
Band lengths:
268-548
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)