RnoINT0106126 @ rn6
Intron Retention
Gene
ENSRNOG00000030316 | Otogl
Description
otogelin-like [Source:RGD Symbol;Acc:1589018]
Coordinates
chr7:51811571-51812066:+
Coord C1 exon
chr7:51811571-51811677
Coord A exon
chr7:51811678-51811940
Coord C2 exon
chr7:51811941-51812066
Length
263 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
CCACTGTCTGGCCATTGCAGCTG
3' ss Score
7.82
Exon sequences
Seq C1 exon
AACTGATGATGATGAAACTTATTGTCGAGCAGCCACCGAGTATGCTAGAGCGTGTTCCCATGCTGGCTTCCCCATTCAAGACTGGAGGGATGACTTTCCAGCATGCA
Seq A exon
GTATGTTTGCACTTCTCAAGTCATGTATTTTACAAAAACAAACAGACAAACAAACAAAAAACCCCAAACAATAGCAACAAAAACAATTAATTTTGTCCTAGAATTCAGAATTTAGTTTACCCAGCTTCTCAAAACTAATACATTTTAAGATTTTCTTTTAAAAACATTGTTCGCATGTTTGTACATTTACGTATTTCCTAAACACTCTTTCCTGAAAGAAAGACAATAAAATTGACTCATAGCCCACTGTCTGGCCATTGCAG
Seq C2 exon
CTGATAAGTGTGACGACAGCTTTGTCCACCGGGATTGTATCAGTTGCTGCCCACCGAGCTGCACGTTTGACAAGCAGTGTCTTGGGAGCAATCTTCACTGCCTTGACGGATGCTACTGTGCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030316:ENSRNOT00000043774:4
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:
PF087426=C8=FE(51.4=100),PF0182612=TIL=PU(10.9=18.9)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=FE(65.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGATGATGAAACTTATTGTCGAGCA
R:
CATCTGCACAGTAGCATCCGT
Band lengths:
228-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]