RnoINT0000028 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211247300-211248499:-
Coord C1 exon
chr2:211248321-211248499
Coord A exon
chr2:211247466-211248320
Coord C2 exon
chr2:211247300-211247465
Length
855 bp
Sequences
Splice sites
5' ss Seq
AAAGTACAT
5' ss Score
1.57
3' ss Seq
CCTCCTCCCTTGTTTCACAGATT
3' ss Score
11.57
Exon sequences
Seq C1 exon
AAGACTACTTACATGTGGCGAGAACCAAAGTTGTGTTCTGGGGGCATTTCCCTGCCTGAGCAGAGAGTCACCATCTGCAAAACGATCGATTTCTGGTTAAAAGTGGGCATCTCGGCTGGCACCTGCACTGCCATCCTGCTCACTGTCCTGACCTGCTACTTTTGGAAGAAGAATCAAAA
Seq A exon
GTACATGGTGGGGTGTTGGAGTCTGAGGGAGGTCGGAGTTGGATCCTTAAGCCAGGGTATTACTGAGAATTTTCTTTAGAGTTGACCCTGTCTGTGGTTGACCAGAGACTTGAAAAGATACTCATCCATTGTGGGTCTCGGTTATCTTCGTTCTTGAGCAGAAATGGCTATCTAAAAATGTCTATAAGATTCTCTAAAGAAAAACCAAACCAGGTGAGGTAGTGCATGTCTTTAGTACCAGTTACTAGCAGAGACAGCTAGATTTCTGTGAGTTCAAGGACAGCTTGGTCTATATAATGAGACACCATCTCAAAATCAAAAAACCAAACAATAACAAACAAAAAACAAAAAGAAAAGAATCATTGAACTGAGGTTGTAGATCAGTGGTAAAGTACTTGCCCAGCGTGGATTCAAAGTCCACCAAAAAAGAATGTTCTAAATTTGTGGTTTTTATTAACAATGAAAAAGCAGGGTGTAGAGTTCATGCCCGAATCCCAACACTTTGGAGGTAGAGGCAGGAAAACTCAGAGTTCAGGATCATCCTCCAGCTACATATCAGTTCTGGGGCAGCCTGGGCTATATGAAACCCTGTCTCATAAAACCCAAAACCAACCAAAACAAGGCATGACTTTATAATTCCAATATTTCTGTTAACCTTTGACATCACAGAAAGAAACAAGCAGCCTTGAAGAAAAAAGATCACTAAACTGGGAAGCCAGATCCCGTCTATCGCCTGATCTTCATGCCACTTCACAGGGTTTTGCCCTTACTGTGACGCGAGGCATCTGTTAGAGGCCCAGCCTTTCCCCGCTCAACCCCACATTCTCATCTCTCGCCTCCTCCCTTGTTTCACAG
Seq C2 exon
ATTAGAATACAAATACTCCAAGCTGGTAATGAATGCTACTCTTAAAGACTGCGACCTGCCAGCAGCAGACAGCTGTGCCATCATGGAAGGGGAGGATGTGGAAGACGACCTCATCTTTACCAGCAAGAAGTCCCTCTTCGGGAAGATCAAATCCTTTACCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:20
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:
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:
AAGACTACTTACATGTGGCGAGA
R:
GGAGGTAAAGGATTTGATCTTCCCG
Band lengths:
342-1197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]