RnoINT0000021 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211253829-211255986:-
Coord C1 exon
chr2:211255723-211255986
Coord A exon
chr2:211254003-211255722
Coord C2 exon
chr2:211253829-211254002
Length
1720 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTA
5' ss Score
2.48
3' ss Seq
CTGGACCCTTTCCCCCTCAGGTC
3' ss Score
10.49
Exon sequences
Seq C1 exon
GGCAGAAAGTATACTAATGATGTCGCCAAGATCTACTCGATCAATGTCACCAACGTCATGGGGGGTGTGGCCTCCTACTGCCGTCCCTGTGCCCTAGAAGCCTCTGATTTGGGCTCCTCCTGCACCTCTTGTCCTGCTGGCCATTATATCAACCGGGATTCTGGGACCTGCCACCTCTGTCCCTCTAACACCATCCTGAAAGCTCACCAGCCTTATGGTGCACAGGCCTGTGTGCCCTGTGGTCCAGGGACCAAGAACAACAAG
Seq A exon
GTGCTACCAGTCTGCCCGGCTTGCACGGGTGCTGGGTTCTTACTGGGATTCTCTAAGGCTGATACCCGCATGCCCCCCCCCCGGAGACCCCCACCCCACTCCCACGCTCAGGTTGCTGTGAAGGGCACTAACCTGGATGTGACTGTGGGCGGTGAGCTCTTAGCAGGAGGTCTTGTCTTTCCTCTGTAGCAGGCAAGTCACATCTTCAGTTGGTGAAGATTAGTGCCCCTGTGGTCCAGAGGTTTGGCATCTACACAAAGACCTGAAGGGAAGAAATAGTGGGGTCTGTGGCCCAAATTTAGGTCATTAGCACAGTAATCTGATCTGCTCCCTCTGTTTAGGAAGGTGAGTCAACCTTTGCTGGTACTTACAGTTAATCGGCATAGCTGCCCTCCAACCAGGGGGCTTCTCAGCTCGATGGATATATAAAGTACATATGAAGAAAGGGTCTTAGATAGTCATCAGCATTTAGAATTAATTTGTTTTCTGCCAGTCACACCAGGGAGACATCTATCAGACTTTAGCCATTGACTTACACTTACTGCTTACGTACTTATGAGACCAGGTCCCATGTAGGCCAGACTAACTTCAAACACGATACAGTCTTGCTCTATTTATCTGCAAAGTGTGTTCATTCATTGTACAGACCCTTCAAAATTTCTTAGGGCAGTGGTTTTCAACCATTAAGAGGGGGCTGCATATCAGATATTTATATCACAATTTATAATAGTAGCAAACTTACAGTTATGAGGTAGCAACGAAGATAATTTTATGGTTTGGAGTCTTAGAGGGTCACAGCATTAGGAAGGTTGAGGACCACTGTTTTAGGGGGTACCTGGGACACTCTCCATAGTCTTCTTCCCCTGGAGCTCCCTCTGCTGCTGGTGGAGAGAATGACAACATGTCAGACTGCCTCTGACTGAGGTCCCTACCATACAAGGAATAGGAAGGGAAGCTCCTTCCACAGCTCAGTTTCCTACAGAGAACTCCAGCAAAAGGAAGCGTTTCAGTGTTTGAAATGGCCGTGTGTGTGCTGAACGTCGGGGGAAGAATGGAAGTCTCTTTCTTGCCACTCTGGAGCACTTATTTAAGTTAAGGCCCTGCTGTCTTGTGCTTGAAAGACAAGCTTGGTCACAGAGCACATGCCCAGCCTGCACAAGGCTCTAGGTTTGATCCCTAGCACCACTGAAAACAAGGTCAGACAGAGGCTCTCCAGTGAATACTGGCATCTGGGAACAGTGGAGTACGTGTGCCACAGTAAATCATAGGTCTATTCAAAGACTTTGAGACATGAATGAAAAGTGTGTCAGACATATTGGAACAGGGATCGTTGGCCACCACGACTAACAAGAAAGTGGCATCAGTCCAAGGCTGAGTGGACAGTGGCTGGGCAGATGTCCTTGTAAAAGTCTTTTGTGTATGTATAGGGGCGTCCTTGTAAGAGCCTGCACACTGGTGCTTCTGTCAGTCTTTCATGATAGCCACCACAGGCAATTATATAGGAACCCACTTCAGATGTGTTCATCTTACATATGCCAATAAGCAAGAGCAAGGTAGACCCGATAGGGGTCTGCTTCCCTTCTTTTAGTGTCCACCTCAGTCTTTCCTTCCTCTTCTTTAATTTCACTCCGGCTGGAACAGGTTGTGGGGAGGTCTGTTGTACTCCACTGCAGCTCTCAAGGCCTGAGATTCGCCACTGACTGGACCCTTTCCCCCTCAG
Seq C2 exon
GTCCACTCTCTCTGCTACAATGACTGCACCTTCTCCCGGAACACTCCCAGCAGGACTTTCAACTACAACTTCTCAGCTCTGGCAGGCACTGTCTCTCTGGCAGGCGCACCCAGCTTCACTTCAAAGGGGTTGAAGTATTTTCATCATTTCACGCTGAGTCTCTGTGGAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:14
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=WD(100=45.5),PF076998=GCC2_GCC3=PU(80.4=46.6)
A:
NA
C2:
PF076998=GCC2_GCC3=PD(15.7=13.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTCACCAACGTCATGGGG
R:
CCCCTTTGAAGTGAAGCTGGG
Band lengths:
351-2071
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]