GgaINT0145745 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2858811-2862012:-
Coord C1 exon
chr28:2861822-2862012
Coord A exon
chr28:2861531-2861821
Coord C2 exon
chr28:2858811-2861530
Length
291 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
GAGGCACGTTCCTCCCTTAGGGA
3' ss Score
7.41
Exon sequences
Seq C1 exon
GAACAGGAGCTGCAAGCTGATCCAGGAGGGGAAGGAGTGTTTCCAGGGCATGCGCCTGCGTCACTACTACATGCTGTGTGGAGCCCTGCTGAGGGTGTGGAGCAGGATTGCCAGCATCATGGCAGACATCACAAACACCAGCTACCTGCAGATCGTCCGCCTCAAGACCAAGGAGAAGAAGAAACAAGTTG
Seq A exon
GTAGGTGAAATGTGGGGAAGGGAATGGGGGTATTCTGGGAGAAGGCCCCTCCTAAACTGGGCTGTGTCCTGGCCTGGCAGCTCTTGGACAGCTGAGGCCACCTGACGTGTGTTTGGGCAGAGAGTGAGAGCTTTGGTTGCAGCCCCATCTCCCTGCTTCGCAGCCTGGCCAAGAGGCAGAGTGGATGCCAAATGCTCGTGATGAATGGGCCCTGGTACTTCTGCCTCTGTCCCCACAGCTCCCCCTCCCTTCCTGAAGTGCTCTGGGGACTGAGGCACGTTCCTCCCTTAG
Seq C2 exon
GGATAAAGATCCCCGAGAGCTGCGTCCGTAAGGTGCTGGAGGAGCTGAAGCAGATGGATGAGAACGTGAAGCGGAAGCACAACCGACTCCTCCAGGCACAAGAGCAGAGCCTGCAGTTCCCCCTCTCCCTGCACATGCTGCAGCAGCCCCTGGACCTCACGCAGACAGCACCTGGGCTCCCCCTACCCCAGCACTCCCTGCGCCAGGACGAGATCCTGGACCTGACCTACAGCCCTCCCAGCGACAGCATTCCTGACATGATGAACCCGGAGCCCAGCACTCTGTGCTTCCCCCCAGAGCCTGTGCTCCAGCCCCACCAGCAGCACGGATCTCCCTTTGGCTTCAGCCACCTTCCTGCCTTCAAGAGCCCGGACACCATCCTGGAGGGGAGCGTGCCTCTGAGCTCTTCGCTGCAAGAACATCAACCCCTGCCTCACCCTGAGCCCTCACAGACTCTGCAGCAGCAGGAAGATTTTGTCCAACAGGATGGAAATATCAATTTCAGAGAGATCCTGGAGGACATGCTGAGGACGTTCAATGGGGCCCCTCAAGAGAACATACTCCCCCAGGAGCGCCAGAGTGTGATCCAGTTTTGGAAAAGCCCACTGAACTTCTGAGAGCCTCTGGGTGCACCGGGTGACGCTCAGCCACTGCAAATCCATATCCTTTGGTGCAGAGATGGGGGCTGGGGAGCCCTGGCTTTTCTACTGGTTTGGACTGATCCATTTCTTTTTTTTTTGAGGGAAGAAAAAAAAAAACAACTATAGTTCCTTAAAGCAAAGTTTATTTATATATAATATACAGTCAGGCATGTATAGATTTGTATATAACATGCTTGGGGGGAGTTGAGTGCTGCAGAGTTCAGCTGATCTGGACTGATGGTCTCTGCTGTGTTCAAGTCCTGCTCACGGGTCAGTGCTGTGTGAGACCGAGGAGAGACACCCATCCCCTGCAGACTACTGAGTATCCAAGCCAGGTTGTGCCTCTCCCAGCCCAGAGCTCTGCAGCTGCAGCCCCTGAAGCTGCCTCAGCTTTGCAGCAGTTGCAGGAGCTGGCTGCACCAGCACCTACTTAGCCAGGATCGTGGCAGAGCTGCTGAGTTTGTCACAGCTCAGCCACACTGGGACCACGCGGGGACTGCCTGGAGCATGGGGGCCATGAGCCCCATTGACCTCTCCTGAGCCTGCAGGGCTGCTGCAGCTGGCCATGCTTTTCCCAAATTTTGCTGTCCTGTGCTTTTTGTCCTGGCCTTCTCCCCAGCCCTGTGCTGCAGGGCTTCTTGGCTGGGATGGGGATGGCCTGGCTGCGTCACCCAGCACTGCTCTCAGCCCCGCAGAGAGGTCCCTGGTGAGCACAGGGACGTGCAGTATTGCTGCTCATGCTGCAAATCCAACCTCCAATACCAAAGAGCAAACACCTGCTTTGCACTGCACTGCCCCAGATCCCCACCTGCCCCAGCAGCAGGGTGGGCAGCTGCCCCCCCCAGCACAGAGGGTGCTGCTGCCAGCCCCGCTCCACACCTCGCACCTCGGCAGGTCCCGGGGTCGTGTCCTTTGTTTTCTCTGCTTAACCTGAGGAGTGTGGCAGGGGGCTGGCAGCGGTGCCCGGGGGCAGCTGCTCTGCGTCCTCCCTTCTGCATCTGTTCTCTGCCTTCGGTCACCTGGGTGTCCCTGGAAGCAGCACCGGGATGCTTTCAGGGGAAGGATGTGAGCCCCTCCCCAGCCGGCCCAGCTCTTGGCAAGGACCTGGAGGGGCCACCCCCTGCCCAGGAGGTCAGTCTTGAGGGGCTGCAGCTTTCCGTGTGCCCCTGAGCCCCTCCAGGCACAGAGGCCCAGCTTTGGGAAGCGCCGTGGGTCGCTGCAACCCCAGAGACTGGGGGCTGCCCGCCCCGATGCGCTGAGAGCAGGGACAGCCCGTGGACTCCCTGCTCCCCCACCAGCCTCACTGTTTGATTGTGTCCAAGGAACCCTCCTTACCTCACAGCCCACACCAAAGATGGGAGCTCCTGCGTGCCCCCAGGCTCCCAGCAGAGCAGGGCTCTCCCCTTCCCCTCCTATTTAAAGTATTGCCCGGCTCACAACACTCGCATTCACGTTCACTCACTTGGCACTTGCTGAATTCTCAGCAACGAGGGAAAAGGATACCAAGAAACCCCATTTCAGAGAGACTCACAACTCAGGAATCACAACGAGGTATTCCCACCCGGGTGCCCTTTGCCCACCACTGTGCCACGTTACCAGAGTCCCACGTGGCAGCTTTGACACATGATGTTAAAATATATGCAATTATCCCTTCCCCCATCTCTGAACGACAGAGAGCACCTTCAAATAAACCCTCCCTGCCCTGATCCTGTGTTTTTGTCAGGGTTAATAATATGTAACGATATCTTTTAACTAAATTATTATGCAGTTGTCCTACTGATTGTATGTATTTTTAAATGAGCCCCTCTTTTTCTTCCCTTACACCTTTTTGTTAGCACTTTTTAATCCGCTTGTCGTTTGCCTTTGTTTTTTTTTTTTTCTATGTGTATTTATAATTAATTGAGATGTATATATGTAAAGAGATTGTTGGTTTTTTTTAGAACATGTGCCTTGGACTAATAATTCCTGAATTTTCTACTTGCCTCGGAAGGATCATTTTTCAGTCTGCTCAGTAAAAAGGGAAAGGAGCCGCACGCGAGGTCTCTGTAAGTCCCAGCTCTGTCTGTCCGGCCCTCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.605
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAAACACCAGCTACCTGCA
R:
GCTGTAGGTCAGGTCCAGGAT
Band lengths:
295-586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]