RnoINT0000022 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211252088-211254002:-
Coord C1 exon
chr2:211253829-211254002
Coord A exon
chr2:211252269-211253828
Coord C2 exon
chr2:211252088-211252268
Length
1560 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTCCATATGTGCCTTACCAGGGA
3' ss Score
7.27
Exon sequences
Seq C1 exon
GTCCACTCTCTCTGCTACAATGACTGCACCTTCTCCCGGAACACTCCCAGCAGGACTTTCAACTACAACTTCTCAGCTCTGGCAGGCACTGTCTCTCTGGCAGGCGCACCCAGCTTCACTTCAAAGGGGTTGAAGTATTTTCATCATTTCACGCTGAGTCTCTGTGGAAACCAG
Seq A exon
GTAAGCTGTGTGAGCAAGCAGTCTGAGTACTGGAAAGTGGACTGGAGACCAGATGTGAGCACAGGAAGAAGAAACAAAACAAAACATGAAAACCAAAACATCCAGGGACTAAGCCACTACCCAAACACTATACATGGACTGACCCTGGACTCCAACTGCATAGGTAGCAATGAATAGCCTAGTAAGAGCACCAGTGGAAGGGGAAGCCCTGGGTCCTGCTAAGACTGAACCCCAGTGAACGGGATTGTTGGGGGGAGGGCGGTAATGGGAGGAGGATAGGGAGGGGAACACCCATAAAGAAGGGGAGGAGGCTAGGGGAATGTTTGCCTGGAAACCAGGAAAGGTAATAACAATTGAAATATAAATAAGAAATACTCAATTTAATAAAGATGGAGAAAAGAAAAAAAAAAGAAAGCCCAAAACAAAACAAAGAAAGAAAAACACAAACAAAAAAAAACAAACAACACCACAGAATCTTTGAGGCCATTGAGGAAAGAGAGAATTAAAGAGGTTTAAACAATTGTAGGCAGCTTCTCAAAGGGAGCTGGGAGAGGTAATGTGGGGAATCTAGGATATGTGTCCTTCTAATCCTGCTTCAGCCTCCCAAGTGCAAGGTATACACTCATCTCCATGGCTGGTCACGGCAAGGCTAGTAAAGACCAGAGGTGCCAGGCATGGTGGCACAGAAACAATCCCAGCCCTCAGAAGGTTGAGGCAGGAGGATCTGGAATTTGAGGCCAGGCTGTGCAAAGCAAATATGTCAAAAAAAAAAAAAAAAAAAAAAGCCTGGAGAAGCTAGTTTCCTTCTCTCACACACAGTTTGCTTTGTTTTATTCTGTTCTTTCATAAAACAGAAGGGAGAGGCTGAGAGTACGGCTGAGAAGCCAGAACAGTGTAGCAGTCATAAGGCCCCGGGTTCACTCTCCCAGAACCTCCCCTCCCTCCAAAGGTTAATCCAGACAATCCCACGTTTGGGGGTGGGGGGCGATGAAGCAGGATAACGTTAGTTCCAAGTCCCTCTGGGCTATTTAGCAAAATCCCATCAAAACAAAACCAAAGGCAGGGGACTTGACTGCTCCTCAGACATCCTGTCTCAAGTCGTCCGGCCTGTTTGAACCCCTTGGAGTCTGTCCAGACAGTGCTTCCAAGACAGACACTGAACCACAGCACCAAGGGAGACAAGAAGGGGCATAAGTCAGCCCAAATGTTCCAGTAAATGTCACTGGCCTCAGGGCTCAGTTGCATAGCTCTTGAGGATGCACCTAGATGCAGAGGGACCCCCCCCCACCCCTGACCAATTGGTTGGAACTCCAAAGCAGTGGTTACCAGCACAGTGGAGGTGACCACAGGGAAGTACAAGGCCAGTGTCTAGAAACTGGGACAAATCTTTACCTTCTCCCCCACCCCCGTCCCCTCCTCCTCTTCAATCTTCTTGTGAGAATCATTCTACTGCAGCATAGGATAGGGACGCTTACCTTTTAGATGCATGGTAAAAAGTTCCCTATCCCCTCTTGGGACTCTTCTGTGGTCATTGGCTTTCTTCCATATGTGCCTTACCAG
Seq C2 exon
GGAAAAAAGATGTCTGTATGCACAGACAATGTCACTGACCTCCGGATCCCTGAGGGCGAGGCCGGTTTCTCTAAGTCCGTCACAGCCTATGTCTGCCAGGTGGTCATCATCCCCTCTGAGGTGATGGGCTACAAGGCTGGGGTATCCTCACAGCCAGTCAGCCTTGCTGACAGACTTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:15
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=PD(15.7=13.8)
A:
NA
C2:
NO
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:
TCTGCTACAATGACTGCACCT
R:
AACAAGTCTGTCAGCAAGGCT
Band lengths:
344-1904
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]