GgaINT0111107 @ galGal3
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
NA
Coordinates
chr1:41704218-41705625:+
Coord C1 exon
chr1:41704218-41704264
Coord A exon
chr1:41704265-41705038
Coord C2 exon
chr1:41705039-41705625
Length
774 bp
Sequences
Splice sites
5' ss Seq
CCAGTCATT
5' ss Score
-10.45
3' ss Seq
AATGTGCCTTTTCCTTTTAGGCA
3' ss Score
10.86
Exon sequences
Seq C1 exon
AATACCCTTCTTTAGAAGAGCCTTCTGGGACATAGGCTCAATTTCCA
Seq A exon
GTCATTCAAAATGCATCTTCTACATCCAAATGAGACATAGCTAAAGATGAATTATTTCATTTCTCTAATACTTTATAAAATTCAGTATTTGTGATGATGTTATACTCACCTCAAATGTGATTTGACTATATAACTACTAATGTGTCATATGCGTATGGAAGATTTCAAATGGAAAAAATATTGCTATGGTGAAAAGTTCAGACTTTTCAGTTGGTGAGGCACCATTAATAAATTCAGGACATCTATTTTATAATTTCTGGTGTGTGAAGTTACCACATTATTTGGTTATTTTGGGGATACTGTATTCTTTTAACAACTAACAACAAATGTAACAATTACATTTTAATACTGTCTTTTTAACTTATAAGTTTGAATTAATTGCATTTTTATTTTTGCTAGTATGAAGTTATACGGCCTTCCAAAGAGATAAAAGAAGATAAACTCTAAAACTCTATAATTTTTTTATTCCAAACATTCTGCCATTTTAGAGTTAACGAGTTTTCCATAGAACTCTCTTGTTGCTTCAAAACTATTCTGCAAAGTCAAGGTTGTAAGTAATAATAAAAATATGCTATTCCATTTTCAAACAAAATTAGAAAACTTCCTGAGAGCTGAGTTCCTCAAAGCCATCAGGCAACCTGAAACCATTACAAACTTATCTTTTCAGCAAAGTTATGCTCTGATTTGCTAATCTTTAAATGTGACTTATGTCAAGATAGATGTTGCTATTTTTCTTTACCATAAAAGACAGTGAAATGTGCCTTTTCCTTTTAG
Seq C2 exon
GCATACCTGTGAAACCTATGGGATCAGCAACCGGAACAAAACCTTCATTGTTAATCTCTCACCCGGTTGCTACCACAGAGAGATTTCCTACGACACCTCCTATACATGTAACTTCATGGACTGAATCATCTGGTACTGATATGACAGTCAAAATTACCATGAAGACAAACACAACTTTAGCAAGAATGAATATTTCAGCGCAGTCCGTTACAGACTTGTACTCACTGGAAGATGCCACCTATTCAGCATATTCACTTCCAAGTATAGTGGAAACTTCTGATGTACCTCACAGCACTTCAAGTCCTTCTGTCCTTTTCAAACTCATCTCTTCAACAGATTTTCCAGCTGCTTTTCAAGCCTCAGCCATCACACCGTATACTGTCAATTCTAATGCATCTACAACTTTACCCATTCCAATAGCAACTTCAACAACCTTACTCAGTAGAATTCCTCTTCCAACACATTCTATATTATTAACACCCAGTTCCTTTGTTGTAGTTCCATTTCCACTTGAAGTATCCACCTCTCAGCAAGGAACTCTTCCCTCTACCTCAACACTTGAACCTCCAAACCATCTTTTGTCACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:33
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=0.071
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
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAGCCTTCTGGGACATAGG
R:
AGGACAGAAGGACTTGAAGTGC
Band lengths:
346-1120
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]