GgaINT0111094 @ galGal3
Intron Retention
Gene
ENSGALG00000010342 | OTOGL
Description
NA
Coordinates
chr1:41673269-41674800:+
Coord C1 exon
chr1:41673269-41673431
Coord A exon
chr1:41673432-41674692
Coord C2 exon
chr1:41674693-41674800
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:ENSGALT00000017091:20
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
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]