HsaINT0145255 @ hg38
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr19:1112189-1112537:-
Coord C1 exon
chr19:1112402-1112537
Coord A exon
chr19:1112302-1112401
Coord C2 exon
chr19:1112189-1112301
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:ENST00000361757:21
Average complexity
IR
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