GgaINT0111083 @ galGal3
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
NA
Coordinates
chr1:41660513-41660913:+
Coord C1 exon
chr1:41660513-41660621
Coord A exon
chr1:41660622-41660866
Coord C2 exon
chr1:41660867-41660913
Length
245 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
TTTGTGATTTTTCTTTTTAGTGT
3' ss Score
10.22
Exon sequences
Seq C1 exon
GTCTCATTATGGAAAATGGAACTTGTATCTCCGTGTCAAATTGTCCTTGTATTTATCATGGAACTGCCTTCCCCGTAGGCTCAAAAATTGAGCAAGAGTGTAGTAATTG
Seq A exon
GTATGTGAAAGCCTCATGTATGTGTTTCCTCTATCTGTGACAGTTTCCTATAGTTAGTTTAACATCATAGTCATGCTCAAATTTCAAAAAATAGTATTTATGCTTTATGGTCTGGGCTTTGTGTATCACCAAAATACACAGTTCTACAGAAACAGTGAATTCAAGATCTATTACTTATTTCATAGCTTCTATTTTGACAAATGTTGGAACACTGAATTTCTGTTTTTTGTGATTTTTCTTTTTAG
Seq C2 exon
TGTTTGTATTGGTGGCATTTGGAACTGTACTGATCATGATTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:9
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(25.9=37.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTCTCATTATGGAAAATGGAACTTGT
R:
CTGGACAATCATGATCAGTACAGT
Band lengths:
156-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]