RnoINT0106089 @ rn6
Intron Retention
Gene
ENSRNOG00000010983 | Otog
Description
otogelin [Source:RGD Symbol;Acc:1306610]
Coordinates
chr1:102321205-102321563:+
Coord C1 exon
chr1:102321205-102321280
Coord A exon
chr1:102321281-102321384
Coord C2 exon
chr1:102321385-102321563
Length
104 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CTCCCCTGTCCCCCATTCAGTGA
3' ss Score
8.9
Exon sequences
Seq C1 exon
TGGGAAAAGTCGCAGCTGGATGAGGAGTTCATGCACAGCGTGGAGAACGTGTGCGGCTGTGCCAAGTACGAGTGTG
Seq A exon
GTGAGTGGGAAGGGGCAGATGGGAACCTCAGGTGGGCCAGCTGGGAAGGGCCAGGGTGGGCGCGTGGGCTCTCTGGGACAGACCCTCCCCTGTCCCCCATTCAG
Seq C2 exon
TGAAAGCCCCCGTGTGCCTGAGTCGTGAACTGGGTGTGATGCAGCCAGGCCAGACTGTGGTAGAGCTCTCGGCGGATGGCGTGTGCCATACGTCCCGATGCACAGATGTGCTGGACCCTCTCACCAACTTCTACCAGATCAACATCACCTCCGTCCTTTGTGACATGCACTGTGAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010983:ENSRNOT00000068434:50
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAAAGTCGCAGCTGGATGA
R:
TGCATGTCACAAAGGACGGAG
Band lengths:
243-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]