BtaALTA0026085-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000020505 | SBNO1
Description
strawberry notch homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:22973]
Coordinates
chr17:54496490-54498795:+
Coord C1 exon
chr17:54496490-54496594
Coord A exon
chr17:54498483-54498485
Coord C2 exon
chr17:54498486-54498795
Length
3 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TATATGGTTTTCTTTTCTAGCAG
3' ss Score
8.27
Exon sequences
Seq C1 exon
TCAGTGCCACTTAGTGCATTAGAACTAGGTTTGGAGACTGAAGCAGCAGTTCCTGTTAAACAAGAACCAGAGACGGTACCTACTCCAGCACTTTTAAATGTTAGG
Seq A exon
CAG
Seq C2 exon
CAGCCTCCATCTACTACAACATTTGTGCTGAATCAAATAAATCAGCTTCCAACCTTGGGATCTACAATTGTAATGACTAAGACACCACCTGTAACCACGAATAGGCAAACCATCACTTTAACGAAGTTCATTCAGACTACTGCAAACACACGCCCTTCAGTCTCAGCACCAGCAGTACGAAATGCCATGACTTCCGCACCTTCAAAAGACCAAGTTCAACTGAAGGACCTGCTAAAAAATAATAGTCTGAATGAACTCATGAAACTGAAGCCACCTGCTAATATTGCTCAGCCAGTTGCAACAGCAGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020505-3-4,3-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.829 A=NA C2=0.857
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
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:
GGTTTGGAGACTGAAGCAGCA
R:
ATGTTGTAGTAGATGGAGGCTG
Band lengths:
100-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development