RnoINT0119330 @ rn6
Intron Retention
Gene
ENSRNOG00000018809 | Psmd5
Description
proteasome 26S subunit, non-ATPase 5 [Source:RGD Symbol;Acc:1308434]
Coordinates
chr3:13921627-13922942:-
Coord C1 exon
chr3:13922751-13922942
Coord A exon
chr3:13921737-13922750
Coord C2 exon
chr3:13921627-13921736
Length
1014 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TGTCACATCGTTCTTCACAGGAA
3' ss Score
9.21
Exon sequences
Seq C1 exon
GATTTGTGAAGTTTTTTGGAAACCTGGCTGTCATGGATAGTCCTCAGCAGATCTGTGAGCGCTACCCTGTCTTTCTGGAGAAAGTGTTTGCAATGGCAGACAGTCAAGACCCCACTATGATTGGTGTGGCTGTAGACACAGTTGGAATCCTGGGATCCAGTGTTGAAGGGAAACAAGTTTTACAGAAGACAG
Seq A exon
GTTGGTGTGCCTTGTCTCAGCTTTTGTATCTTTGGCCAGGATTCCATGTTCAGGTCCATCTGCTGGTGGGATAACTGTTGCAGAAACGACTTTTGTGGGGGACAGTCTTTACCCTCATCATGAACTTGTCTCCCAGTCTCATGATCACTTTTACTCCTCACTCTCTATTAGGTTTTCCCCCAACAAAAACTGAGTGGTCTGCTGCTACTGTCTTCCTTCACTGCATTTTATGGCATAGCTCATGTTGTGCCCCAGCTCCCACTGATGGAAGCTGTATGATTTCATTTACGTGCCTTCTCTGGGCCTCACATTCCTCACTTACCAACATGCACAATGGCAGCAAACGTAGTGGTATGCTTTAGGCCGATAGTTATAGTGCACGAAAATACATTGCTTTCGCTTCATACCCAGTACAACGGCCATTACCTTTTTTAAAGCATAGCAAGTGTTCAGATGTTGAAAAGCTCCTGCGTTTTCTTACCGGAATATGAAGTGGTACAATTGCTATAGAAAACAATATGGAAGTTCCACAGGAAAAGTAAACAGAGTTAGCATGTGAGCCAGCAGTTCCACCTGCAGATGTAAGCCATACAACATGGAAAGCGGTGGTTCCAGCAGTGTCTGTACTCCTGTGTACAGCAGAATTAGTCTGCTCAGAACAGTCAGAAACACCGTAACACGCGTGATGGATACATGAATTACATGTGATGGGATTTGACTTTGTGAAAGTGTGAGGCTATGAGTCAAGCCCCTGCACAGAGACAGTCTGAAGACATTTTGCTAAGACCAGCAAGCCGGGATGGGAGACAGATACTGCGAGATATCACAGACAAGGTTCTCTTACCAGAGAGCAGTGAAGGAGAAGGGAGGGCGCGGTTTGCTTACCGAGTCCCTCGGCTCAGTTTGGGTTGTTGGGCGCCCTGGAGATGGAACACGGCACTGAGCGAGATGGGCAGCACTGGCTATGGTAAGTGTTAAAATGGTAGGTGTTATGTGTCACATCGTTCTTCACAG
Seq C2 exon
GAACCCGCTTTGAACGCCTCCTCACGAGAATAGGTTATCAAGCAAAGAATGCTTCCACAGAGCTGAAAATTAGGTGTTTGGATGCAGTTTCCTCTCTTCTGTACCTATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018809:ENSRNOT00000025433:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105084=Proteasom_PSMB=FE(12.7=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(20.1=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:
TTGGAAACCTGGCTGTCATGG
R:
GATAGGTACAGAAGAGAGGAAACTGC
Band lengths:
286-1300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]