HsaALTA0007504-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000139697 | SBNO1
Description
strawberry notch homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:22973]
Coordinates
chr12:123829805-123832680:-
Coord C1 exon
chr12:123832576-123832680
Coord A exon
chr12:123830115-123830117
Coord C2 exon
chr12:123829805-123830114
Length
3 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GTTTTTTGTTTTCTATCTAGCAG
3' ss Score
7.52
Exon sequences
Seq C1 exon
TCAGTGCCACTTAGTGCATTAGAACTAGGTTTGGAGACCGAAGCAGCAGTTCCTGTTAAACAAGAACCAGAGACTGTACCTACTCCAGCACTATTAAATGTGAGG
Seq A exon
CAG
Seq C2 exon
CAGCCTCCATCTACTACAACATTTGTGCTGAATCAAATAAATCATCTTCCACCCTTGGGATCTACAATTGTAATGACTAAAACACCACCTGTAACAACCAACAGGCAAACCATCACTTTAACTAAGTTTATCCAGACTACTGCAAGCACACGCCCGTCAGTCTCAGCACCAACAGTACGAAATGCCATGACCTCTGCACCTTCAAAAGACCAAGTTCAGCTTAAAGATCTACTGAAAAATAATAGTCTTAATGAACTGATGAAACTAAAGCCACCTGCTAATATTGCTCAGCCAGTAGCAACAGCAGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139697-3-4,3-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.828 A=NA C2=0.860
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACTGTACCTACTCCAGCACT
R:
ACAATTGTAGATCCCAAGGGTGG
Band lengths:
106-109
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)