GgaINT0111104 @ galGal4
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr1:39751066-39752044:+
Coord C1 exon
chr1:39751066-39751344
Coord A exon
chr1:39751345-39751926
Coord C2 exon
chr1:39751927-39752044
Length
582 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
ACATTTTCCTTCTTCGTCAGAAC
3' ss Score
6.82
Exon sequences
Seq C1 exon
CTCTCTCCCTTGTTTCCCTTGAGTGTGCTGAAAGACCAAACTACTTTCTGTATGTACATGCTGATGAAACTGTTGGGTTGGAGCAATGGCAGGCAAGTACCTCCTTCCAAAGACGAGCCACCTTCTTCCACCACCAAGGCCTCTGGAGTCCAGGGCTCAGCGCCTTTGAGCTACATAGTAAAAAAGGCTTTTTCATCATTCTCACATCATCTGGTGTTAAAGTGGCAAAGTACGATGATTCAGAAGAATTCAAACGTATGAGTAGCTTCAGTATTGAAG
Seq A exon
GTAAATTTTGCATAATCCCCATGAATAAGTACAGATTCTTCTGCTTGCCTTTGGAGCACTTCTCTTGTGTCAACAACAGCAACTAGTATTTTAAATTTCTCTTCTAACTTGGTCTTGAATCCCACCTCCAAATGTTGTAATTTTCTAATTCCTGCATATGCAAAGATTAATTTATCTTTGGACTATATTCTCATTCTTTTTCACATTGTAGCATGTCACAGAAAATGCATGTTATTGAGCGGTATGATATCTTGTTTTTCTAGTGAATGAGGTAACTATTGCTTCTGAAACAAACAGTACATTCAGTATGTTTCACTGATTTGTTTAATCAAAATATGCTGTGAAGAGTGAGTAGTTTTTTCTATTTTTTCTGTTTTGGTGTCTTTTACCTTGTTTGAAGTACTTATCCAAATGGCATAAATGAATGAAATCTCACCTATTAAAGTTCCTGAGAATTTCTATTCTTAGTTTTCTATTTTTACATTTTTCTGAAATTGCTAAGATACATTATAGAAAAGACTATACATTTATAGTTTATTGACTTACACAGCCAATAAATAATACATTTTCCTTCTTCGTCAG
Seq C2 exon
AACTCAGTGCATCTGTGCCTTACAGGAAGATGTGTGAATGGAGATATGAATCTTGTGCTAATCCTTGCTTTAAAACATGTAGTGATCCTGAAGGAACAGCATGTAAATTCCTTCCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF052708=AbfB=PD(79.3=97.9)
A:
NA
C2:
PF0182612=TIL=PU(50.0=70.0)
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:
GTGTGCTGAAAGACCAAACTACT
R:
TGCTGTTCCTTCAGGATCACT
Band lengths:
358-940
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]