RnoINT0106070 @ rn6
Intron Retention
Gene
ENSRNOG00000010983 | Otog
Description
otogelin [Source:RGD Symbol;Acc:1306610]
Coordinates
chr1:102300214-102301285:+
Coord C1 exon
chr1:102300214-102300492
Coord A exon
chr1:102300493-102301167
Coord C2 exon
chr1:102301168-102301285
Length
675 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
GGAGGAGATTGTCTTTCTAGATG
3' ss Score
1.7
Exon sequences
Seq C1 exon
ACCCTGATGTGGTGTCCCTGGAGGCGGCTGACAGACCCAACTTCTACCTGCATGTCACAGCCAATGGCTCTATAAGGCTGGCAAAATGGCGGCGCGATGAAGCCTTCCATCAGCATGCCTCCTTCTCCCTGCACCGGGGGACATGGCAGGCTGGCCTGGTGGCTCTGGAGTCCCTGGCAAAGCCTGGCTCCTTTCTCCAATCATCAGGCCTTAAGCTGGCTCTGCGGACATATGAACACACAGAGGCATTTCGTGGTGGTGCACTCTTCCGCCTTCTGG
Seq A exon
GTAAGGGTCCGCCCTGGCACCGCTCTGCCTTCTGGGTAAGGGTCCGCCCTGGCACCGCTCTGCCTTCTGGGTAAGGGTCCGCCCTGGCACCGCTCTGCCTTCTGGGTAAGGGTCCGCCCTGGCACCGCTCTGCCTTCTGGGTAAGGGTCTGCCCTGGCATTGCTCTTGGGTCTGGGGCTCTGCCTCACTCAGGTACCTTCCCTGTCCTCTCTCCCTGAGGACAGAAATTTCAGCCTGTTGGCAAAGAGCAGGCTCCCTGGGGTTTACTCCTGGAACAGGAAGTGGTCTGACCTCCATATTGGCAGCTCAGGGAGTGGTGGCAGGATGGGCTGAGACACAGGCCACTTTTGTGGAAATAGGCAGCTTGTGTGGAAGTGAGAGATAGCGCACTTGGCTTCGGTTTCCTGCCGAGGGCACATATTGTTCCCAGGACGCCGGGCTGAGAAACTAGCAGGGTCTCCAAGGCTCTCCAGACCCTGTCCGCAGTTGTCATGGATGCAGCCTGCTTTGACTTGTTTCTTTTTTTTTTTTTCTTTTTTCTTTTTTCTTTTTCCCTGTGTGTACTCACATGTCCTCACCACAGGGCAGGGAAGGCATGGGCTGATCTGGGATAATTCTGGGCACTGGTGTTCAATCTCTCTCAGTCCAGAGACTTGGAGGAGATTGTCTTTCTAG
Seq C2 exon
ATGCCAAGCCTTCGGGGGCTGCCTACCCCATCTGTGAGTGGCACTATGATGCCTGCGCTAGCCCCTGTTTCCAAACCTGCCGGGACCCGCAGGCAGCCAGCTGCCAGGATGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010983:ENSRNOT00000068434:33
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:
PF052708=AbfB=PD(63.9=97.9)
A:
NA
C2:
PF0182612=TIL=PU(50.0=70.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATGTGGTGTCCCTGGAGG
R:
GGTTTGGAAACAGGGGCTAGC
Band lengths:
353-1028
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]