RnoINT0000019 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211257893-211258372:-
Coord C1 exon
chr2:211258267-211258372
Coord A exon
chr2:211258031-211258266
Coord C2 exon
chr2:211257893-211258030
Length
236 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
CTTGCCTCTCCTGGCCTCAGGGC
3' ss Score
9.71
Exon sequences
Seq C1 exon
ACCTCCCCAGTCAGTGATGGCAGACACAGAGAACAAAGAGGTGGCCAGGATCACATTTGTCTTCGAGACCATCTGCTCTGTGAACTGTGAGCTGTACTTCATGGTG
Seq A exon
GTATGTTTCTTCTCCTAGCCAGATGGGGGATTCCATGGGAGGGTTGGCCCAGCATGTCCCAGCAGTGAGGCCATATATTGGACACCCATCACGGTAATTCCACAGAGCAAGATCCCAGAGTGACTTCCAGGGACTCTGTAGTACTTAACACAGGTCTGACTAGGGCATTAGCCCACAGCATAATGTTTGCCTCACGTAACAATCATGCCTTCCTCACTTGCCTCTCCTGGCCTCAG
Seq C2 exon
GGCATGAATTCCAGGACCAATACTCCAGTGGAGACGTGGAAAGGCACCAAAGGCAAACAGTCCTATACCTACACCATCGAGGAAAATGCTACTGTGAGCTTCACATGGGCCTTCCAGAGGACCACCCTTCACGAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.065
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCCCCAGTCAGTGATGG
R:
TGTTTCGTGAAGGGTGGTCC
Band lengths:
244-480
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]