RnoINT0129259 @ rn6
Intron Retention
Gene
ENSRNOG00000023639 | Rpusd1
Description
RNA pseudouridylate synthase domain containing 1 [Source:RGD Symbol;Acc:1304934]
Coordinates
chr10:15100275-15100618:+
Coord C1 exon
chr10:15100275-15100377
Coord A exon
chr10:15100378-15100516
Coord C2 exon
chr10:15100517-15100618
Length
139 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATA
5' ss Score
5.05
3' ss Seq
ACAGTTGCCTTCCCATCTAGGTT
3' ss Score
9.54
Exon sequences
Seq C1 exon
GTCCGAGGCCATGTCCAGGAAAGCCAAGTGACGATCAACTATGCCATTGGCAGGAACAGCACAGAGGGGCGGACCCACACCATGTGCATTGAGGGCACTCATG
Seq A exon
GTAATAGTAGTTTGTTGTGGGGGCCATGGGCATGTCTCCAAACCCTGCATGGATGAGAACAGCCAGACAGATGTAGACTGGACTTGGCTCAGGCTCTAGGGATGGCCCAGTTGACCCTTACAGTTGCCTTCCCATCTAG
Seq C2 exon
GTTGTGAGAACCCTAAGCCAAGTCTCACAGAGCTGCTGGTCCTGGAACATGGGTTATATTCTGGTGACCCTGTGTCCAAAGTGCTGCTGAAGCCACTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023639:ENSRNOT00000015206:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0160011=Corona_S1=PD(23.7=91.4),PF0084917=PseudoU_synth_2=FE(20.5=100)
A:
NA
C2:
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:
GTCCGAGGCCATGTCCAGG
R:
TTCAGCAGCACTTTGGACACA
Band lengths:
194-333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]