RnoINT0156953 @ rn6
Intron Retention
Gene
ENSRNOG00000043189 | Trub2
Description
TruB pseudouridine synthase family member 2 [Source:RGD Symbol;Acc:1359394]
Coordinates
chr3:8339756-8340934:-
Coord C1 exon
chr3:8340862-8340934
Coord A exon
chr3:8339893-8340861
Coord C2 exon
chr3:8339756-8339892
Length
969 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CTGGCCCTCCTGAATCCCAGGTA
3' ss Score
6.38
Exon sequences
Seq C1 exon
ACCATGTGACTAGAGAGCGGCTGGACCGGATCCTGGCTATGATCCAAGGCTCCCACCAAAAAGCCCTGGTAAT
Seq A exon
GTAAGTAGATCCAAGAGCTCCTCTGCCTGCAGGGGGATTAGAGGGGAGGTCCATACCCCAAGGAATATGACTAGGGGTGAGTGGGCGATGGAATCCCCTAGGAGCTGAGAGCTTGCCCAAGAGCTCTCTGCCAGGCTGCTCAGGACTCCTGACTCCCAGGCATCAGCCTCATGGCTGCCAGGAAACTAGCCATCTGTAAGTCAGACATGTACCTGAGCACAGTGTTTCAGGGACAGAATGGGCAGAACCTGCTGGGATCAAAGGAAGTGGCTCAATGGACAGAGCTCAAAGAATCACCTGGCCGGGCCCTGTGCATGCACCCACGGTCGGTCGGTCGGCGTGCCAGGACTGAAAAGGCCAGGTGTGCTTAGAAGCCATATAAGGGCTTGAGGTGGGAGGGGCTGGGACAGCAGAAAGGGAAGTAGGTAAGACTTCCCCGGGCAGTGGGGACTGAGGATAGTTCTGAAGCAAGACTGTAGTCTCACTGGGGACCCTGTGAGGAAAGCTGGACAGGGACAGAGACAAGCTATGAGGACAGTGGCCTGTGCTTACTGCTCCAAGCCTGAAGACAGCAGGGAAAGCAGGGGCAGAGTGGAGGGAGACCTTAGAGGGGGGAGGGGCCACAGGAAAGAAGGGACCAGGATGACACCGGGTCCTGAAGATGAGCCATTTGTGTGGGTGGCCCTGGAATCGGGTGACATTGAGGTCCCTAAGGGTTGCATTTTTTAGGTAAGGTGTCTGAGGGTGGAGCACAGGGCACAGGGTGTGGTTGGGATTGCTCAGCCTGTGACAGATGGCGTCAGGGATTGACAAAGAAATGCCTTTGGTGGCTGAGAGGGAAGCTGCCCTGAAGGTGGATGGGAGAGTGGGGGTTGGGGGTGGGAATGGGGAGAACAATGAAGACACCCCCTCTTATGGTGGAGCAGGTGCCCCACACTGGCCTCCTACTCTGGCCCTCCTGAATCCCAG
Seq C2 exon
GTACTCCAACCTGGACCTGAAGTCCCAGGAGGCCTACGAGAGGGCTGTGCAAGGCGTGATCCGGCCCATGAACAAGTCCCCAATGCTCATCGCTGGCATCCGCTGCCTGCACTTTGCACCTCCTGAGTTTCTTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043189:ENSRNOT00000064638:6
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=0.113
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=FE(12.9=100),PF0150913=TruB_N=FE(16.0=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=PD(9.7=38.3),PF0150913=TruB_N=FE(30.7=100)
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:
CATGTGACTAGAGAGCGGCTG
R:
CCAAAAGAAACTCAGGAGGTGCA
Band lengths:
208-1177
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]