GgaINT0111106 @ galGal3
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
NA
Coordinates
chr1:41704022-41704264:+
Coord C1 exon
chr1:41704022-41704105
Coord A exon
chr1:41704106-41704217
Coord C2 exon
chr1:41704218-41704264
Length
112 bp
Sequences
Splice sites
5' ss Seq
TAAGTATAT
5' ss Score
-1.83
3' ss Seq
TTAAATAAATGCTTTAACAGAAT
3' ss Score
5.21
Exon sequences
Seq C1 exon
GGTTGAAGGATGCTTGCCTTATTGTCCCAAAAACATGATCCTTGATGAGGTCACACTTAAATGTGTTTACCCAGAAGACTGTAA
Seq A exon
GTATATGTTATGCTATTGATCTAATCTTATAAATCATTCTACAGATCCTTTGAGGTTTTAATTAGATATATTTTGCTTTTATTTTCCGTTACTTAAATAAATGCTTTAACAG
Seq C2 exon
AATACCCTTCTTTAGAAGAGCCTTCTGGGACATAGGCTCAATTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:32
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:
PF0182612=TIL=PD(48.2=93.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGAAGGATGCTTGCCTTA
R:
TGGAAATTGAGCCTATGTCCCA
Band lengths:
131-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]