GgaINT0111094 @ galGal4
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr1:39722800-39724331:+
Coord C1 exon
chr1:39722800-39722962
Coord A exon
chr1:39722963-39724223
Coord C2 exon
chr1:39724224-39724331
Length
1261 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
GTAATTCTTTTATTTTAAAGGAT
3' ss Score
7.58
Exon sequences
Seq C1 exon
TTCACATATGCCCTGAAGGAAAAATCTACTATGACTGCAGATCTCCTGTGCCTGGATTACCAGCAGCAGGTGTGAATTGTGGGATCTCCTGTGCAAACCTTGCCATGAACTTCTCCTGTGTCCCCTCACCACCCTGTGCCAGTGGCTGCATTTGCCCCCCTGG
Seq A exon
GTAAGCTTTGGCAGTTAAATACGTATTTCCACAGTTTGGCTCTAATTTTGGAACTATTGTTCTATAAATTTTTGAAAATAGAGTCATATTTAAAAGGCCAGCATGCTTTCATCTCTATGAGAGTCCTTTTCTCCTTATCAGCATGAGGCTCCATGCTTTAATGCTTTCTCAGTTCAAGTCCCACTGTTTCTCCATCCTGATACCATGATTCCTGTATCTCACGAGATACCCAGCTTGCTCAAATAGTCTTATTAACTGTTATTTTGGGCTGTCTGGGCAGGTGGTGACCCCTAGCACTTGCACACTATGTAGATCATATGAACATAGAAACAAACATGACATAAAACCATAAAGTAAATAATCTGTGTTCCAGCTTACTATGCAGGTAATTGTCTCACCTAGATTTCTAGTCAGGCTTATGGTATTGATGGGGCAGGGAGAAGGGAAGGGGTATAGGATAGATCCTACACTCCTCTCCTTCATAATCTCTCTGCTCTTTTGAACTTAGCCGAAGTTTTTGTTCTCTCTACTCACATATTTGGATTTGTTGCTCAGAAACAGTCTACTGAGCTCTGTAGGGGTCAAATCAAAATAAGGTAGCTAAGAATATCTACTATCACTCAAATTTTCCTTTCCTCACCCCCCCCTCCCCCCGCCATACCTAATGTGTGCACTTTCACATTTGAAGAACCAAATATGCTGTACAAATTGCTTCAATTTGATCTCAAGTGGAGTGGTAACCATTTTTAATCAGTATTTGATTTTATTTCACTGGATGGTAGTCCACAGTCCCCTGACAGTACACTGATTGTGCACAAATCACAGTGTAATGAGACTGTTAGAAATCACGTTCCAGAAACTTGTAATGTTTGCAGATGACTAAACACTAGTGATGAACAGATTTCAAGCACAGCTGTTAAAGTCTCCCTCTTTGGAAATCTTCAAAAGCTGGCTGGATGTGGTCCCAGGCAACAGACTTTAGGTGTCCCTGCCTGAGAAGAGGGTTTGGATCAGATGATTTCCAGAGATCTCCTGCCACCTCAACCTTCCACCTTGACATCTCTTCCTACTCCTTCTGCCTCAACTAAGGAGTTAGCTTTTGAGAGCATTAGTGTTACAGAAATAATTATATTTTAACACAAAAATTCATTAATGTTTGCAAGATGTCATAGAAAGACTATTAAGTTTGCTCACTGAACTGTATTGATGTACTTATCAATTTACTTTTTTTTTTTATCTTAGTAATTCTTTTATTTTAAAG
Seq C2 exon
GATGGCTGAGCATAGAGGGAAGTGTTATATTCCTGACAGCTGTCCATGCACCTGGAAAGATAGGGAATTTCTATCAGGAGAAGTGATATCTACGCCTTGTTATACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010342:ENSGALT00000017091:24
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=PU(77.3=92.7)
A:
NA
C2:
PF0182612=TIL=PD(21.2=37.8)
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:
TTCACATATGCCCTGAAGGAAA
R:
AGGTATAACAAGGCGTAGATATCACT
Band lengths:
270-1531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]