GgaINT0111081 @ galGal4
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr1:39708494-39709417:+
Coord C1 exon
chr1:39708494-39708600
Coord A exon
chr1:39708601-39709291
Coord C2 exon
chr1:39709292-39709417
Length
691 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGA
5' ss Score
3.51
3' ss Seq
GTGATGTGTTCTTTTTCTAGCTG
3' ss Score
9.69
Exon sequences
Seq C1 exon
GGTGGATGATGATGAAACATACTGCAGAGCAGTGACAGAGTATGCTAGAGCATGCTCCCATGCTGGGTCCCCTGTGCGAGACTGGAGGGATGATTTTCCTGCTTGTA
Seq A exon
GTAAGACTCTTTATTAAAGCATACTGTGTAACCTTTGAAACACCACCAGATATCCTTTTCAAATAATTCCATCTTAACAACATTTGTCGCTATAGGACTCAAACCTTATACTGAAGTAGATCAGCCAGCTTCCTTATTGACAGAGAACAAAGAAGTCAATTACTTGCTTGAGGACTATTTTAATTCCATTGCGATTTCGTGTAGATACATACAAAATTCATGTTTGTGCAGATTACTTGAAACTTCATGTATGTTGATCATACTCCATAAGGAAGAGAAAACATCTATGGAGATCTGATGTCATCACTGTCTCCAGCTGACCTTTCAGCCTCTACCAGCTTTATAACAGAATCAATAAAGGGAATGCGGCTCCTTCTCGTCATCGCTGCTGCCTATCAATTGTGGTTCAGTCACATGCACAGAACTTTGAACTAATTGAGATATGATCACGTTCCCCTGTTACAGGAGTTATAACTTGTAGTGGAGAGGTGATAGAAAAATTTGATAAACAGACTTAAATACTGATGAGAGATTCACTGCAGTTCATCAGTTATAGCCTCTCCAAACAATCCATTGTACCTAATCTGGGTAATCACTTACACCAGAAGTGTTGCACAACTATTTATTCAGTGAGATGAGACTTCTCCAGTATGGAAAAAGAAATTGCAATTGTGATGTGTTCTTTTTCTAG
Seq C2 exon
CTGAGAAGTGTGAAGACAGCTTTGTACACCGTGATTGTATCAGTTGTTGTCCACCAACTTGCACCTTTGAAAAAGATTGTCTTGGCAGTAACCTACACTGCTTAGATGGGTGTTACTGTCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:11
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:
PF087426=C8=FE(51.4=100),PF0182612=TIL=PU(1.7=2.7)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=FE(72.4=100)
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:
GGTGGATGATGATGAAACATACTGC
R:
TCTGGACAGTAACACCCATCT
Band lengths:
231-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]