GgaINT0111091 @ galGal4
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr1:39719711-39720955:+
Coord C1 exon
chr1:39719711-39719876
Coord A exon
chr1:39719877-39720880
Coord C2 exon
chr1:39720881-39720955
Length
1004 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CATGAATATTCTTTTGGCAGATC
3' ss Score
6.8
Exon sequences
Seq C1 exon
CTGCGATGTGTCACAGTGGTATGCTTTATCATCAGTGCTCTTCTTTTTGTAAACACTCCTGTGCTTCACTTTCTATGGCAAATATCTGTGGTGATGACTGTGCGGAAGGCTGTAATTGTCCTGATGGGAAATACTTTGAAGAGTCAGTCAACTTTTGTGTGTCAAT
Seq A exon
GTGAGTCATTCAAAAATAGAATATATGTATAGGCACATCTTTCTCTTTCCAGCAAGGCTGAAAATAGTTTTTCTGCTATTTCCCTCAATATGTAGACTGCCCTTCAGAGAAGATATGTCACACTGCTGTACAGAAAGGCGATGAATGTTTTAAAAACCTGGAAAGAATTTTCACCCAAAAAGCTTGCTTTTAGCACTTAAGAAATAATGAGAAGGGGTATATGCAGTACCAATCCATAAAGTCATGGATATTATGGAGAAAGTGGCTGGGAGTGTTTTTTCTGTCTCACAGTGCAAAAACCTTCAGTTAAATGGATGGAAATGGTCAATAAAATGAAATAGCCTCTGTAATTTTGTACCTACAGTTTATATCTTATTACTGTAGGTAGCTACTGAATGAGTAAAAACTAGAATCAGTATTTATATGTTTCAAGATTATTCAGTTATTGCTGTTAATTGTAACATATTTTGGAAAGATCAGTAAAGTTTATGCTGTAGGAATAAAATCTGCTTCAAATAATTGAAGAGTGTGAGGTAACCAGGTAACCCCATATTGTTGGATGACTTTTTGGGAGTTCTGTTACTACTCTATTGCATTCAGCTCTTATCAAGAACGAGGGTAATGGATTTTGCTATAATAATTCCTCTTTCCCATTACTTTGAACAGGAACTAAATGTTGCCATACTACTCCCATATCTGGGAAGAAAATCTATCTTTAAGACTGTAATGTACAAAAATAGCAAATAAATAATATGGAGATTGAGGAAAAGTCTGTCTTTATTGAAGATGATGGCAATATTACAACTGACTTCAGTACAGCTAGAATATTAGAAGTACGTTGTAAATATAAATACAAATTAAAAGGGAATAGAATAGTTATGTTAGAGGGGACTTTAAAGAGGCTGGCTTAGGTTTTCTTATCATAACAGCTTCATAAATTGATTGCCCTTAAATCACATTTCATTTTACTTTTGTATCTATATGCATGAATATTCTTTTGGCAG
Seq C2 exon
ATCTGCCTGTCATTGTCATTACAAGGGCAAAGTCCTACAGCCTGGAGAAATCCTCCCCTTGCCAACAGGTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:21
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=PU(92.9=92.9)
A:
NA
C2:
PF0182612=TIL=PD(5.4=11.5)
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:
CTGCGATGTGTCACAGTGGTA
R:
GAACCTGTTGGCAAGGGGAG
Band lengths:
238-1242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]