RnoINT0129258 @ rn6
Intron Retention
Gene
ENSRNOG00000023639 | Rpusd1
Description
RNA pseudouridylate synthase domain containing 1 [Source:RGD Symbol;Acc:1304934]
Coordinates
chr10:15099971-15100377:+
Coord C1 exon
chr10:15099971-15100094
Coord A exon
chr10:15100095-15100274
Coord C2 exon
chr10:15100275-15100377
Length
180 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
GTGATGTCCTTGCTCAACAGGTC
3' ss Score
10.03
Exon sequences
Seq C1 exon
GTTCTGCCACCAACTGGACTTCTCCACCAGCGGGGCGCTGTGCGTGGCCCTGAATAAAGCAGCTGCGGGCAGCGCTTATAAGTGCTTCAAGGAGCGACGAGTTACCAAAGCCTACCTGGCACTG
Seq A exon
GTAAGCCCTGGCCAGTTCCTGGGATGCCGTGTGGAGACCCAAGGCTCATAGCCTACTCTAGCCGGCCCCTCTAACCCAAGCTCCATGCCAGGCCTATGTGCCTACCTAGAGGGTAGCCACATCCTTCTCGGAGGTGGCAGTGTGACCCTGTGAGCTATGTGTGATGTCCTTGCTCAACAG
Seq C2 exon
GTCCGAGGCCATGTCCAGGAAAGCCAAGTGACGATCAACTATGCCATTGGCAGGAACAGCACAGAGGGGCGGACCCACACCATGTGCATTGAGGGCACTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023639:ENSRNOT00000015206:3
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=0.057
Domain overlap (PFAM):
C1:
PF0160011=Corona_S1=FE(30.4=100),PF0084917=PseudoU_synth_2=FE(24.7=100)
A:
NA
C2:
PF0160011=Corona_S1=PD(23.7=91.4),PF0084917=PseudoU_synth_2=FE(20.5=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:
CTGCCACCAACTGGACTTCTC
R:
TGCCCTCAATGCACATGGTG
Band lengths:
218-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]