RnoINT0129256 @ rn6
Intron Retention
Gene
ENSRNOG00000023639 | Rpusd1
Description
RNA pseudouridylate synthase domain containing 1 [Source:RGD Symbol;Acc:1304934]
Coordinates
chr10:15099009-15099839:+
Coord C1 exon
chr10:15099009-15099242
Coord A exon
chr10:15099243-15099628
Coord C2 exon
chr10:15099629-15099839
Length
386 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AGGCACCCTCCCACCCCCAGGCT
3' ss Score
6.71
Exon sequences
Seq C1 exon
GACTAAGAAGGTGCGTGCGCAGACCATTCGGGAAGAGCTTCGCCTTCCTTCAGAGGGCGGAGCTCCATGCCGGGAATGCCATTGGCCAGTACGACCATCCATTAGCCAGGTGGAATGGGCAGGGTGAAGGCAGAGCTGCGCGGCAGCCAGGCCAAGACCTGGTTCCTTGTATAGGAAAGCTGGGTTGGATGCAGGGCTGAGACGTGACATCCTGGTCCTTTGGCCCTGTTGCAG
Seq A exon
GTAAGTCCTCAAGGGTCTACCTGTGGTTACAGGCTGGAGGGAGGTAAGTTAGGGAGCGCCTGCAGTCCTGGGTGGTCCGGGCCAATCAGGGCACAGCAACCCCTGTCGGCTTCCTTGCCTACTCAGAGAAGATCCATAACCCAGCGCGAAGTGTGTAGGGGTGAGCTGGACAACCAGGCTGTTTATTTCACGTCGAGTCAGGGAGAGCTCCCTCACCCTTGAGTCCATGGCAAGTCAGAATCTCCTGACCTTGGCCAGACTCCCATTCCAGAGCTGATCCCCTTGGCCTGGCCCCTTGTGGAAGGCAAAAAGGGTTCTAGCAGGTGCTGGCCCCAATAAGTGTGCACAGAACTTGAGGTCCAGGTCAGGCACCCTCCCACCCCCAG
Seq C2 exon
GCTCACTCCCACCTGCGTGCAGCCCCACCATGGAGCCTGGCAGCATGGAAAATCTGTCCATCGTGTACCAGAGCAACGACTTCCTGGTGGTGAACAAGCACTGGGACCTGCGCATTGATAGCAAGACCTGGCGTGAGACCCTGACCCTACAGAAGCAACTCCGACACCACTTCCCAGAGCTGGCTGACCCTGACACCTGCTATGGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023639:ENSRNOT00000015206:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0160011=Corona_S1=PU(44.4=98.4),PF0084917=PseudoU_synth_2=PU(26.5=72.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGAGCTTCGCCTTCCTTC
R:
TCTCACGCCAGGTCTTGCTAT
Band lengths:
342-728
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]