HsaINT0145247 @ hg19
Intron Retention
Gene
ENSG00000064932 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:29158]
Coordinates
chr19:1117322-1119163:-
Coord C1 exon
chr19:1119010-1119163
Coord A exon
chr19:1117499-1119009
Coord C2 exon
chr19:1117322-1117498
Length
1511 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CTTGTGACGTGTCATTGCAGTGG
3' ss Score
5.46
Exon sequences
Seq C1 exon
GGGCGTTGGCGCCATGGAGATCGTGGCCATGGACATGAAGGTCAGCGGCATGTACATCGCACGCCAGCTCAGCTTCTCCGGCGTCACCTTCCGCATCGAGGAGATCCCGCTGGCCCCAGCCTTCGAGTGCGTCTACAACCGCGCGGCCCTGCTG
Seq A exon
GTGAGCCTGCGCACCCGACCCGGGGACCCCTGTGCGTTTCCCGGGTGAAATTGCTCCCCCGTGGCCTTGCAGATGCCACAGGCGTCATCAGGTGACGGCCCGCCCTGTCCTGTCCTGGGGTTTTTTTTTTGTTGTTTTTTTGAGACAGTCTCGTGCTGTCATCTAGGCTGGAGTGCTGTGGTGTGATCTCAGTTCACTGCAACCTCTGCCTCTTGGGTTTAAGCGATTCTCCCCCCTCAGCCTCTCGAGTAGCTGGAGTTACAGGTGCCCGCCTCCACACCCAGCTAATTTTGTGTATTTTTTGGTAGAGAACGGTGTTTCTCCATGTTGGCCAGGTTGGTTTCAAACTCCTGACCGCAAGTGATCTGCCCGCCTCGGCCTCCCACAGTGCTGGGATGACAGGCGTGAGCCACGTGCCCGGCCATCACTGGGGTTTTTATGTGGCTGTGATAACGAGGGATGGGACCAAACCACCGCCCCCCTTCCTGTGGTGCCCAAGCCCTTTGCCCCCAGGTCCTGGCCCACAGCTGGCAGTTGGTAGCCGTGTTCAGCATCCACATTGCTGTGGGCCATGTGGCTTGGTCGTTCCCTCCATGTTTGGACAGGTCCTGTTTTCTCCCCCTCACGCCCAACAGCCCTGTATGTTCGATGGTTTTTTTTTTTTATTTTTTGAGACGGGGTTTCCACTCTTGTTGCCCAGGCTGGAGTGCAATGGCACGATCTTGGCTCACCGCAACCTCCGCCTACCAGATTCAAGCAATTCTCCTGCCTCAGCCTCCCGCGTAGCTGGGGTTACAGGCATGTGCCACCAGCCCGGCCAATTTTATATTTTTGGTAGAGACAGGATTTCTCCATGTTGGTCAGGCTGGTTGGTCTCAAACTCCTGAGCTCAGGCGATCTGACCGCCTCAGCCTCCCAAAGTGCTGTGATTACAGGCGTGAGCCACCACACCCAGCCTCTTCACTCGTTTCTTTAGGTGACACAACCAGCATCTCCCGTAACCCCCAGGGCCGGGTTGCTCTCCGGGGTGGGGCCGTCCTGAGCACTTTGGGGTATGGAGCAGCATCCGTGGCCAGAGTCCCAGCCACCCTAACCCAGCCCACCCAGTCATGCCGGGACCAGCCCCCAAACCTGACCACCACAGCCAGCCCCAGACATGCCCAGTGTCCCCTGGACAGGATCACACCTGGGTGAGACCCTGGTCCAAAGCAAGAGAGGCGTGGCTGCGAGCACCCTGTGTTCTTGGAAGGAGCTGAGCCTGTTTGCCGCGGGCGCGGAGTCTGTGCAGTTTGCAGCACGGCTTCCCCACCACGAGTGTTTTGGTTTTTCAGGTTTTTGCCGTACAGGTAGAGGCAGTGCCTCTTACAGTGCACACCCCCAGCACCCCCATCCTGCCCTAAATTCCACCTGGCGTGGGGATGCCTTGCCCAGGGCTGGCGGCAGGTGGGCCGGGGCCCGGGTCGGGAGCCAGGAGCCACAGCTCAGGGGCGCCTTGTGACGTGTCATTGCAG
Seq C2 exon
TGGGCCGAGGCCCTGAACGTGTTCCAGCAGGCGGCCGACTGGATCGGCCTGGAGTCGCGCAAGTCCCTGTGGGGCCAGTTCTGGTCGGCACACCAGCGCTTCTTCAAGTATCTGTGCATCGCAGCCAAGGTGCGCCGGCTGGTGGAGCTGGCCCGAGAGGAGCTGGCGCGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000064932-SBNO2:NM_014963:14
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:
PF138721=AAA_34=PD(16.3=92.3),PF139001=GVQW=PU(2.6=1.9)
A:
NA
C2:
PF139001=GVQW=PD(10.3=66.7)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGCGCCATGGAGATCG
R:
CTTGTCTCGCGCCAGCTC
Band lengths:
327-1838
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)