RnoINT0000029 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211246068-211247465:-
Coord C1 exon
chr2:211247300-211247465
Coord A exon
chr2:211246137-211247299
Coord C2 exon
chr2:211246068-211246136
Length
1163 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TGTCACCATCTCTCTTTCAGAGG
3' ss Score
10.68
Exon sequences
Seq C1 exon
ATTAGAATACAAATACTCCAAGCTGGTAATGAATGCTACTCTTAAAGACTGCGACCTGCCAGCAGCAGACAGCTGTGCCATCATGGAAGGGGAGGATGTGGAAGACGACCTCATCTTTACCAGCAAGAAGTCCCTCTTCGGGAAGATCAAATCCTTTACCTCCAAG
Seq A exon
GTAGGGAGGGACTAGACGTGAACTAAAAAATCAGCTTGGGGTGAGGCATGGACACTGGAACACTGAGGGGCGCTGCTTCATACAAGACTTCTACTCTGATTCCCACTCCCAGCACTCTTCTGGCCTCTCCTAAAAATATCACCTTCTTCCCTCTGTAGTTCATGTCAATACTCTCTTCCCTGGAGCCCAGCCTGCTCTTGACCTTGGCTCCTTCCTCCCAGTGCGTATTCTGGTGGGTGGATTCTTAGGGTTTTTAAACTTTGAGATGGAGTATTGAACCATTGTGTGTAATAGTTACACACACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGACTTTTGAGTGAAGAGGAGGCGATCTCTAAGTTTGGTTTCTGATGGAAGAGAAGCCAGGGCCTCTGAGCCTTTAACCAGTGGAGGGTGCTATCCCCGAGGTGTGTGGGCCCCGCCCCGTCCTGAGAGGCTGAGTCATAGCCAACAAAAACTGCAGCTGCTATGTAATTCTGAACTGGACGGGCTGGCTCTGTGTGCGTGTGTGGATGAGTGTGAAGCTCATAAATGCAATGTAGACACCACTGTCTCTGGGTGTAGGGCCAGCAGAGGGCATCCGACAGTTACTCCAGAGCCGAGCATACACCTGGCTACTGCACAAGGGCGTCTTTCAAACAGGTGTGAATGAGGAGGGCACAAGAGGCTAGGAGAGGGCAGGAAGCCTGCTGAAGAAGGGGTTGGCAGTCTGTGGCAGTCTGTTCAATGCCTGGCTCTTATTTCCTTTGTGCTGACTTGTCAGGGTGACTCCCTTGGCCAACGTAGGCCTTGAGGGTTGTTTTTTTTTTTTTTCTTTTTTGTCCTACCAGTGAGAGATAGTTAACCCTGGGAACCTCTTAGGGTCTGTCTGGGAATTTTAGAACTGGGCAAAGATACACACCAGGAATCATAAGTCTCTCATTCTCTGACTGAGTCTGTAGAGAGCAGGAAGGGACAGAGCATAACTCGTTCCTATGCTCCCACCAAAAACAGGAAATTCAGAGGGTTCCTCTGTCACCCATTTTCCATTTCTCTTCTTTGTCCCCCTTAATTTGCCCCCGTGCAGCAGCCAGTTCCTGTCACCATCTCTCTTTCAG
Seq C2 exon
AGGACTCCTGATGGATTTGACTCGGTGCCACTGAAGACATCTTCAGGAGGCCCAGACATGGACCTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.136
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAATACAAATACTCCAAGCTGGT
R:
TCACAGGTCCATGTCTGGG
Band lengths:
232-1395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]