RnoINT0000020 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211255723-211258030:-
Coord C1 exon
chr2:211257893-211258030
Coord A exon
chr2:211255987-211257892
Coord C2 exon
chr2:211255723-211255986
Length
1906 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTTTGTTTCCTTAACTCCAGGGC
3' ss Score
9.41
Exon sequences
Seq C1 exon
GGCATGAATTCCAGGACCAATACTCCAGTGGAGACGTGGAAAGGCACCAAAGGCAAACAGTCCTATACCTACACCATCGAGGAAAATGCTACTGTGAGCTTCACATGGGCCTTCCAGAGGACCACCCTTCACGAAACA
Seq A exon
GTGAGTCCCTCCCCATCCCGGATGCAGACTGTGAGCACAGGAGTCCTGCCGTGAGCTTACACGTGGCCCTCGGAGAGCTTCTAGCCTTTTCTAAACAACTTCCAGGGAAGATAACATTGAATACCTTCAACCATCTGTCCCCGTCCCCTGCAGCCTCTACCACAGGTGAAGCCAGACTTGTGGCTATCTTTAAGAATAATCACTTTGGGGTTTGGGGATTTAGCTCAGCAGTAGAGCCCTTGCCTAGCGAGCGTAAGGCCCTGGGTTCCGTCCCCAGCTCTGGAAAAAAAAAAAAGAAAAAAAAAAAAAAAGAATAATCACTTTGTCTTTCTTTTGTTTTTGAGACAGGGTCTTGGTATGTGACCCAGGCTGACCTCGAACGCAATCCTCCTGCCTTAGCCTTCCCAGAGCTAGATTAAAAACTTGACTTTATTTACCTAACTCAAAAATACAGATGTATTGCAGAAAACACAATCAACCTGGGCTATAGAGTAGACCCTGTCTCAAAACAAACAAACAAACAAACAAACAAACAAACGAACAAACCACCCATAGTCTTACCCAGAGATAACCCAGTACTGTCTGGGAGAGAGTAAATTCTTACCCAGAGATAACCCAGTACTGTCTGGGAGAGAGTGCATTTTTTGTTTCTTTCTGTGTCTCCCTGTCCCTGTCTCTCTCTGCGTCCCACACGTGTAATAAGTGCACTCTCACTTCTAATCCCTGCTCCTCAGTCTGGTGTTTTTTTTTTTTTAAAGATTTATTTTATTTATATGAATACACTGTAGCTGTCTTCAGACACACGGGAAGAAGGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTATGGAAGAGCAGTCAGTGCTCTTAACCTCTGAGCCACCTCTCCAGCCCTCAGTCTGGTGTTTTAACCTGGTTGCCTTCCACCTTGAGATCCCCCTGCCTCTGCCTCCTGAGTTTTGGGATTGTAGGGTATTAAGACCACACCCAGTCCTAGTTTTGATTTCTTTTTAAGTATGTGGATTTTTTTTCTTTGGCAAAGATCCCCCTCCCCCATATATTAGAATCTCCTATAAATTCCCCATGGTGCATAACATTTTTCCATAACTTAAAATGGGTTAGGCTTGTTAGTTACACAAAATACACCTTAAAAGCCACTGTTTTTTGTTTTTTGTTTTTTTTTTTTCCAGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCTCTCTACCACTGAGCTAAATCCCCAACCCCGCCACTGTTCTTTTTTAAGTTAAATTGTTTGTTTGTTTGTTTGTTTGTTTATCTTTTGTTTTTTGGGATAGGGTTTCTCTGTGTAGCCTTGGCTGTCCTAAACTCATTATGTAGACCAGGCTTACTTCATACTCACAGAGATCCACCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGTGCATGACACCACCGCCCAGCTCACAATTTATTTTTAGTGTCGTTCACCTTTAATTATCATACAAAGAGCCACCACTAAATAAAGTGGGAAAGATGTTGTTAGTGGTTCAGTCAGTGCCAGCTGTTGTGATGGAACCCAAGGACCTGGGTTTGACCTCTGGCATCCATGTAAAAACCAGGACATGAGACAGTTCGTTCAGTTAGAGACCCTGTTTCAAAAAATGAGATAGTGATAAAAAGAATGTCTGATGTCCACATCTGGCTTCTACATGCATGCTTATATATGTGCCTGTACATTCAAATACACATATATATACATACACACGTGTGCACGCACAAGTGAAAATAAACTACGTTTTTATAAGACACAATGACACAGTACTCTGTTCTTCCTATGGCTGCTGCTGCTTCAGGCCTCTCCTTTCTCGGCTTTTGTTTCCTTAACTCCAG
Seq C2 exon
GGCAGAAAGTATACTAATGATGTCGCCAAGATCTACTCGATCAATGTCACCAACGTCATGGGGGGTGTGGCCTCCTACTGCCGTCCCTGTGCCCTAGAAGCCTCTGATTTGGGCTCCTCCTGCACCTCTTGTCCTGCTGGCCATTATATCAACCGGGATTCTGGGACCTGCCACCTCTGTCCCTCTAACACCATCCTGAAAGCTCACCAGCCTTATGGTGCACAGGCCTGTGTGCCCTGTGGTCCAGGGACCAAGAACAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=45.5),PF076998=GCC2_GCC3=PU(80.4=46.6)
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:
GCACCAAAGGCAAACAGTCCT
R:
TGTTGTTCTTGGTCCCTGGAC
Band lengths:
357-2263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]