RnoINT0000033 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211270437-211270831:-
Coord C1 exon
chr2:211270726-211270831
Coord A exon
chr2:211270587-211270725
Coord C2 exon
chr2:211270437-211270586
Length
139 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
ATGCCATTCTTTCTTCCTAGGGG
3' ss Score
9.98
Exon sequences
Seq C1 exon
GTTGAGCTAAACAGAGGCAATAATGTCCTCTATTGGAGAACCACGGCGTTCTCAGTGTGGTCCAAAGTGTCCAAACCCGTGCTTGTTAGAAACATCGCCATAACAG
Seq A exon
GTACAGAAAAAGAGCTTGGATCTGGGGTCTGCTGCTGACTTCCTGGACTCTTGGCTTCTAGGGGAGGATGGGAATTGGTCCCCAGGGCCTTGGTATCCGGACCCAGCCTTTGATTTTCTATGCCATTCTTTCTTCCTAG
Seq C2 exon
GGGTAGCTTATACCTCTGAGTGTTTCCCCTGCAAGCCTGGCACCTATGCCGCCAAGCAGGGCTCCCCTTTCTGCAAGCTTTGTCCAGCCAACTCTTACTCAAACAAAGGAGAAACTTCATGTCATCCGTGTGATGCTGACAAATACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:6
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:
PF076998=GCC2_GCC3=PU(0.1=0.0)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=64.7),PF075629=NCD3G=WD(100=90.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTAAACAGAGGCAATAATGTCCT
R:
AGTATTTGTCAGCATCACACGGA
Band lengths:
249-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]