HsaALTA0007504-4/5 @ hg38
Alternative 3'ss
Gene
ENSG00000139697 | SBNO1
Description
strawberry notch homolog 1 [Source:HGNC Symbol;Acc:HGNC:22973]
Coordinates
chr12:123345258-123348133:-
Coord C1 exon
chr12:123348029-123348133
Coord A exon
chr12:123345464-123345570
Coord C2 exon
chr12:123345258-123345463
Length
107 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
CAGCAGCCTCCATCTACTACAACATTTGTGCTGAATCAAATAAATCATCTTCCACCCTTGGGATCTACAATTGTAATGACTAAAACACCACCTGTAACAACCAACAG
Seq C2 exon
GCAAACCATCACTTTAACTAAGTTTATCCAGACTACTGCAAGCACACGCCCGTCAGTCTCAGCACCAACAGTACGAAATGCCATGACCTCTGCACCTTCAAAAGACCAAGTTCAGCTTAAAGATCTACTGAAAAATAATAGTCTTAATGAACTGATGAAACTAAAGCCACCTGCTAATATTGCTCAGCCAGTAGCAACAGCAGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139697-8-15,8-14,8-13,8-12,8-11-4/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.829 A=NA C2=0.853
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAAGCAGCAGTTCCTGTTA
R:
TGGCTGAGCAATATTAGCAGGTG
Band lengths:
258-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains