GgaINT0111079 @ galGal4
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr1:39705222-39706057:+
Coord C1 exon
chr1:39705222-39705352
Coord A exon
chr1:39705353-39705944
Coord C2 exon
chr1:39705945-39706057
Length
592 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
GTTTACTGATTTTCCTTAATGTG
3' ss Score
-1.3
Exon sequences
Seq C1 exon
GAGGTGAATATACAGAAGACATTGCTGAATTTGCAAATAGCTGGGCTGTGCAAATCTCAGATGATGCAGCTTGTTTACCTACTGCCTTAGATTTTTCCAGTCCTTGCTCAGCTAATGCAGAATCCACTGAG
Seq A exon
GTAAATTAATCATGTAGTAATTATTATTATTGTTATTATTCTTTTAAATCTTCCCTGCCTAGTGATGGTACAAGAATCTAGTAATATAGACCGTATAGAAAAAAGTACCTCAACTGTATTGAGGCTTTGAGAAGATTCAGGTCAGGGCTTTTGCTAGAGAATGTCTGAAGATCTTCGGTTAGCTTAAAAGTACAAACACTCCAATAGGATGTGCCAAGTGGTAAAGGTCTGCTGGCAGAGCTCTTCGTTGCTGCATCACTCAGTTTCCAGTTCTGGCATCTTACAGCTCATTATGTTGGAAATTATGAAATATTGCAGAAGTACTGAGCTCAGCTCCTGGATTAACATGAAATACTTGGTCATTTTGCAGTCTGCCATGCCGGGTAGTTTAGGAGCAGTATGTGATCAAGCTTCTGTAGTTAAAGAGGAGAAATTTTAGGAAGATAAGTAGAGGACACATAATAAATGGAGACTTGAGATTCTCAAGCTTTAATGGGAGCATGAAGGACCCTAGATTAGATCAACAAAGCTAAAAATAATTATGCTTGTTCAGAAAGTATTTTCTAACTATTGTTTACTGATTTTCCTTAAT
Seq C2 exon
GTGCAGGATATATTCTTCAAGTGCCAGATATTCCTACAATTTCCTTTTCTCAGCTGTCATGAGAGCATAGATCCATATTCTTATATTTCTAGCTGTATGAATGATCTTTGCAG
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:
PF0009420=VWD=PD(0.1=0.0)
A:
NA
C2:
PF087426=C8=PU(47.1=86.8)
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:
GGTGAATATACAGAAGACATTGCTGA
R:
CTGCAAAGATCATTCATACAGCT
Band lengths:
242-834
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]