GgaALTA1028190-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000003392 | SBNO1
Description
protein strawberry notch homolog 1 [Source:RefSeq peptide;Acc:NP_001026640]
Coordinates
chr15:5003305-5004441:+
Coord C1 exon
chr15:5003305-5003409
Coord A exon
chr15:5004132-5004176
Coord C2 exon
chr15:5004177-5004441
Length
45 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TTGGTTCTCTGTTTTGGTAGCAA
3' ss Score
4.25
Exon sequences
Seq C1 exon
TCAGTGCCACTTAGTGCATTAGATCTAGGGTTGGAAACTGAGGCCCCAGCTGCTGTGAAACAAGAACCAGAGACTGTATCAACTCCAGCCTTATTAAATGTTCGG
Seq A exon
CAACCACCGTCCACCACAACCTTTGTGCTGAATCAAATAAATCAG
Seq C2 exon
CTTCCAACGTTGGGGACTACAATAGTGATGACAAAAACAACACCAGTTACAACTACGAGGCAGACTATTACTGTAGCAAAAATCATTCAGACCAGCACAACTACTCGACCCTCGGTTGCAGCACCAGCAGTACGGAATGCCTTGACCACTGCACCTTCAAAGGACCAGATCCAGCTGAAAGATCTGCTGAAGAATAATAGTCTTAATGAACTAATGAAATTGAAGCCACCTCCTAATATTGCGCAACCAGTAGCAACAGCAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003392-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.743 A=NA C2=0.529
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAGGGTTGGAAACTGAGGCC
R:
GCCTCGTAGTTGTAACTGGTGT
Band lengths:
142-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]