GgaINT0111129 @ galGal3
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
NA
Coordinates
chr1:41722038-41722631:+
Coord C1 exon
chr1:41722038-41722216
Coord A exon
chr1:41722217-41722526
Coord C2 exon
chr1:41722527-41722631
Length
310 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGATTTTCGTTTTCTTTCAGCAT
3' ss Score
9.63
Exon sequences
Seq C1 exon
AGAAGGATGATGTGTGCATCTTCCAAGAGGTAACCATACTGAATCCTGGACAATCAGTGATTCAGTACTTGGATGGAGACCTTTGTTACACTGTGCAATGTTTACGAGAAAAAGATCAGAACACAGGATACAATGCCATGCATTTTACAACAGTGAACTGTTCCCAGCAGTGTGAAGCA
Seq A exon
GTAAGTATTCTTAAAACAGAGGGATTATGCAGTTTATGAATAAAACTTCACATTTAAAATAAAAATCAGGAGGCACATTTTTGCTAGTCCAGTTTGCTCAGCAAGAGCTTAAAAACTTAACAGCGTCTTTTAAGTGCTTTTTAGTAGTGTACATGAATATATCCATCCATCCATATATCACTGTTCATTTAGGTATTGTTATTTTCAGAGTTCAATGATTTTTCATATACTATATATATATGTATATGTATATTTAAAGCGACCTCTTTTTTTTTTTTTTTTTTGTTTTTTGATTTTCGTTTTCTTTCAG
Seq C2 exon
CATCAGTTGTATATTCCTTCCTCCAGTCACCATAGTTGCTGTGGTACCTGTCAAAATGTGTCCTGTTCTTTTCTTACTGAGAATGGCACACGAATTGTGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:55
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:
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:
TGTGTGCATCTTCCAAGAGGT
R:
ACAATTCGTGTGCCATTCTCAGT
Band lengths:
267-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]