GgaINT0111121 @ galGal4
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr1:39764840-39765692:+
Coord C1 exon
chr1:39764840-39765025
Coord A exon
chr1:39765026-39765479
Coord C2 exon
chr1:39765480-39765692
Length
454 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGT
5' ss Score
8.01
3' ss Seq
ATGTAACATTTTTCTCTCAGCAT
3' ss Score
5.42
Exon sequences
Seq C1 exon
CACTGAGTTGTCCTGAGGGCAAGGAATACCAGCCTTGTGTGAAACCCTGTGAAGCCAAGACATGCTTGAATAAGTGGTTGTATGAAGATTCTCCATGTTCTTATTTAAGGGAAGACTGTGTGTGTAAAAGTGGCACTGTTCTACATAGAACAGACTCAGATCTCTGTATTCCAGAAGATAAATGTA
Seq A exon
GTAAGTGCACTAGGACAGAGGGGGTTTGCCAATATCTGCTAATATTAACTACAGATCAGGGCAAGCAATGTTTAAATTCTATGTCAGACTTCAGAAGTGTGAATCCAGTATAGCTCTATTCTACAGAGCCTAGCTTTTATCTCAAGCAACATCTTGATCTTTAACCTGATTTAATTCTGCAGGAGAAAAATAATGGTCATTCTTCCATAGTTCCCAGGCTTTCTTTCCTAGAGTACTCAAGAAGGAGTAGCAGGGGCAGCTTATTTTCCCTGTATCCGTTGACTATTTTCACCCATAAAAAAGCATTTGTTTAATATAATCTTTTCTTGATTCGTCATAGTGCTCTGAAGTGCTCTTATTTTAAGCAGTAAGGTCACCTAGATAACAAACAAATGTGTTGTTGCTTGCAGACTTACTCTTCACTTGTCAAAGGGATGTAACATTTTTCTCTCAG
Seq C2 exon
CATGTACAGATAACAGAGGACAACCCCGCTCTGCTGGGGAGATCTGGAATGGGTCCATGAGGGGCTGTTGCATATACAGCTGCTTAGAAAATGGAAGTATTGTTGCTGTAGAACCTGAATGCAATGAGGATCCACCACCAGCTTGTGAAAGAGAAGGAGAAGTGATTGTGCTTGTCATGGAAGTAGAGGATTGCTGTCCAAAAAAAGTTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:51
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=PD(0.1=0.0),PF0182612=TIL=WD(100=93.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGAAACCCTGTGAAGCCA
R:
TGGACAGCAATCCTCTACTTCCA
Band lengths:
350-804
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]