RnoINT0038649 @ rn6
Intron Retention
Gene
ENSRNOG00000005286 | Coch
Description
cochlin [Source:RGD Symbol;Acc:1308536]
Coordinates
chr6:72359791-72360035:+
Coord C1 exon
chr6:72359791-72359810
Coord A exon
chr6:72359811-72359982
Coord C2 exon
chr6:72359983-72360035
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
CACGCCCCACTCTCCCGCAGGTC
3' ss Score
10.87
Exon sequences
Seq C1 exon
GCCGGGCGGATCCCACGCAG
Seq A exon
GTGCGGGACCCGGGGTGATACACAGGGTCTGTGCGTCCTGGTCCGAGGTGGCATAGGGCGTCTGGAGTTGCTCGATCTGCAGCCGCCGGGCTCTCCCGCCGTCGCCCGCTTCCGAGGAGCGCAGGGCCGTGCGGTCCCCGGCGAGCCTCGCTCACGCCCCACTCTCCCGCAG
Seq C2 exon
GTCCACGCAGACCCCCGCCATGCCCTCGTCCTGGAGCCCTGCTCTCTGCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005286:ENSRNOT00000007365:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]