RnoINT0119326 @ rn6
Intron Retention
Gene
ENSRNOG00000018809 | Psmd5
Description
proteasome 26S subunit, non-ATPase 5 [Source:RGD Symbol;Acc:1308434]
Coordinates
chr3:13928209-13928733:-
Coord C1 exon
chr3:13928620-13928733
Coord A exon
chr3:13928338-13928619
Coord C2 exon
chr3:13928209-13928337
Length
282 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
AAATATTTTCTTTCTATAAGGCT
3' ss Score
4.77
Exon sequences
Seq C1 exon
ATTGGGAGGATTGTTGAGGATTCGGAAGCTGTTACTGAGGTCCTGAGTAATGCTGAACTCCTGAGGCAGGTTGTCTGCTGCATTGGTGGAGAGAATTTATCTGTGGCTAAAGCG
Seq A exon
GTGAGTTCACGGGAACTCTCAGAGACTGTCAGACGTTGGTTTCCTCAAGTCGGTAGGGAAGCTTAGTGTTTGACTTGTAGGATAAGGGAGAAATGAACCATTTTCCTCAGCCTATGTAGACAGTGTCGGGAACAGCAGCGTGCTCCTGGGACACCGGTTTCCCAGGAGCAAAAATGGGACTACCTGTTGGATTAGGGTATTTTATGTATAATTTTTATATCAGACTTAGGAAGTAGATACAAATCTTCTGTACTTTTCTGACAAATATTTTCTTTCTATAAG
Seq C2 exon
GCTATCAAATCCCTGTCAAGAATATCACTAACCCAAGCTGGACTGGAAGCTCTATTTGAAAGTAATTTGCTGGACGATTTGAAAAATGTCATGAAAACAAATGATGTTGTTCGATACAGGGTGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018809:ENSRNOT00000025433:3
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=0.000
Domain overlap (PFAM):
C1:
PF105084=Proteasom_PSMB=FE(10.9=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(12.3=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:
TGGGAGGATTGTTGAGGATTCG
R:
ACACCCTGTATCGAACAACATCA
Band lengths:
236-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]