GgaINT0111093 @ galGal3
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
NA
Coordinates
chr1:41672569-41673431:+
Coord C1 exon
chr1:41672569-41672621
Coord A exon
chr1:41672622-41673268
Coord C2 exon
chr1:41673269-41673431
Length
647 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CCTGCATTTTACGTTTGAAGTTC
3' ss Score
5.37
Exon sequences
Seq C1 exon
CCAGTGCTTGAATGGAACAGTGAAATGTATTGAAGCTACTTCAGAAAACACAG
Seq A exon
GTAACTCATGGTCTTTTCTTGTCTAACAGTTGCGCAGAGAAGGTTTTTGATGCTGAATAATATTTTGTTTCCTCATACTATAATAATTTTGAGGGACAATTTCACAGCATATCTAAAATAGGAGATTAGAAGCACAAGTCTTTTTGTGTGTGTTTAAAATTTGTGAAACATTGCCACTTATCTTTTTACATGTGAGGTGTAGGTCAGGATTTCTCTTGGGAATACCTATACTTAGGCTTGACATCCATAATTAGTCAATTTTAGGACCTTGATTTTTAACAAATTTTTAATGAATTTCTAGGGCATTCAGAAGGGATTTCAGTACACTGTAAACTATGCCACTTCTAAAGATCCTGTCTACCTGGAGTATGATGACTTAATCTTTATGAATGGTTTGTGTATCCAATCCAGGGTGCATTGATCCAGATGTTTAATATCAAGCTTTTTTTTTTTTTAACTGAAACAGGTAATAATTATATACTTCTGTAATACAGATTAAGCTGTAGACTTTTACTTGGAATGCATTCTTATAAATACTATACGTGATGCAAAATGTGTATTAAAAAGACTGTGAACTTAAGTAGAAAACAGTCAGCGGGGCGGGAAAGACCATCTGATCTCATTTAACCTGCATTTTACGTTTGAAG
Seq C2 exon
TTCACATATGCCCTGAAGGAAAAATCTACTATGACTGCAGATCTCCTGTGCCTGGATTACCAGCAGCAGGTGTGAATTGTGGGATCTCCTGTGCAAACCTTGCCATGAACTTCTCCTGTGTCCCCTCACCACCCTGTGCCAGTGGCTGCATTTGCCCCCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:19
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:
PF0182612=TIL=PU(77.3=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAACAGTGAAATGTATTGAAGCT
R:
TGGCACAGGGTGGTGAGG
Band lengths:
182-829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]