GgaINT0145732 @ galGal3
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
NA
Coordinates
chr28:2414472-2414951:-
Coord C1 exon
chr28:2414751-2414951
Coord A exon
chr28:2414648-2414750
Coord C2 exon
chr28:2414472-2414647
Length
103 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
CTTTTGCATTTCATTTGCAGGTA
3' ss Score
10.98
Exon sequences
Seq C1 exon
GCAAGCAGAGGGGCCGCTGCGCCAAGACTCTGAAGGGCATGTGTGACCCCGTGGGGGTGATCAAGATCAGCGATGACAGCAGCACCGACTCCGACATGGGGCTCGACAGTGACTTCAACTCCTCCCCAGAGTCTGTGCTTGAGAATGACGATGTCATCTTCATTGAGCACGCCTTCAATGGCTTTGTGACTGAGAGCAGAA
Seq A exon
GTAAGCAGAGCCAGCAACATGGGATTGGCTCCCTTCTCGCTGGTGGGAGCTCCTCTGATTTGCAATTTCCAGGTAACTCTAAACTTTTGCATTTCATTTGCAG
Seq C2 exon
GTAATTTTCACATGCTGCCTTCCCATAAAGAGATGCATGGCCTGAGAGAACTGGAGCATGTGGAAAAGATGAAGCAGGACCTACTAGCAAAAGTAAAAGCACTGGGCAAAGAGCTACCTCTCAATACCTTGGATGAACTAATCAATCACTTTGGGGGACCGGAGCACGTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.206 A=NA C2=0.288
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138711=Helicase_C_4=PU(6.1=28.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGATCAGCGATGACAGCAGC
R:
AGCTCTTTGCCCAGTGCTTTT
Band lengths:
254-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]