RnoINT0119328 @ rn6
Intron Retention
Gene
ENSRNOG00000018809 | Psmd5
Description
proteasome 26S subunit, non-ATPase 5 [Source:RGD Symbol;Acc:1308434]
Coordinates
chr3:13925621-13927637:-
Coord C1 exon
chr3:13927528-13927637
Coord A exon
chr3:13925764-13927527
Coord C2 exon
chr3:13925621-13925763
Length
1764 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTTGTCCTTTTTGACTTTAGAGC
3' ss Score
8.94
Exon sequences
Seq C1 exon
CTAATTATAGATATTTCTTCTGTGTCATCAGAATCGTTAAATTACTGTACCACAAGTGGACTGGTGACCCAGCTCCTGAGAGAGCTGACGGGTGAGGACGTGTTAGTCAG
Seq A exon
GTATGTAGACTGGGAGAGTTCTTCGAGTAAAACACCCTTTTTGTGGACCTTACTGTCGTCCTCTGTGCTGTTGGAGACTACCCAGCTTGCGGTCTCAGTACTGGTGTCACCTTCACATTTTAGGAAATGGCTTTTTGTCATGATAATACATTTAGCTTTGCAAAGTCCTGCAAGATCTCTCAGCTGTTTTCAAATGACTGTATCCTCTGTCTCAAAGTTTACTCTTTGATTAATATGTTTCAATATATGTAACTTAAACAGTTACAAATCACTTTGATAAATGCCATTTTAGATGACATAGCATCTTACCAAGTGGCGTTATCAAATAGCACTATAACACGATAGAAGAAATGCAGTGTTTTTAAAAGAATGACGATGAACTTCATAGCTCTTAGACCTCTTACCTGTTTGATCTTGGACAAATGATTATAACATTGCTATACCCAGTTCTTTCTCTTTTGTGCAGTATTAGGCATTGAACTCAGGACTCACATGTCACACAATCAATCACACTACCACTGAGCTATATCCCTACCCCGTTTACTTTTTTATTTTGAGATAAGAGTCTTGCCTAGATGCTCAGGCTGGCTTTGAGCCCACATGTAATCCAGGTAAGCCTTGAACTTATGATCCTCCTGTCTCAGCCTGGGTAGTTGGATTACAAGCCTGTGGGACCATGTCTGACATCCTCGTTTCTTCTGAGAACAGTAACAATTCTATGAAGAATATATGAGGATTAAGTAAATTAGTCATACAAACCAGTGTGATGGCTGGTGAGGGTCCTTGCTAAGTATTAGCTGGGTCTCCTAGAGCTCCTGCTGTTCCAACCCCAGGTCCTCTCAACATTGCCCAGTATTTGCTGTATTCATCCACATTCTCACTGCTGGGTGCTTATGTGATATATATGTATAGATATGGCATACTTATAGTTCATATATAGGTATTTTTGGTATTAAATGACTTTCTGGTTGTCTTTTGTAATGTGGCTGAATTTCTTAAATCCATATATATATATATATGCATTGCTCACTGGTTCCGTTTGTCTCGAAGCATTTTCTTTCTTCTTTTTTGTTTTTTTCGAGACAGGGTTTCTCTGTGTTGCCTTGAACTCACAGAGATCTACCTGCCTCTGGAGTGCTAGGATTAAAGGTGTGTGCCACTTCCACTCAGTGCATTTTCGTATCTCAATCGAATGAACAAGGGTGTAGATAAACTGAAGCGGTCAGGTGCTAAGCTCAGCCTCAGCTAAACTGCTTAGTTGTTTATCGTGCCTGCAAGTCAGATGGGACCGAAGGATTATCAATGTGTGCTATTACTGTATGAGAAAGTGTTGCTGCTTTTACAGGCGTGCATGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAATGGCACGCATAGTTCTGTGGAAAATAAGATGAAATGTTGATAATTCTACAAACAGGTACAGTGCATGGTAGCTCATACTGCTTTGTTTTGTGTCTGGTATTTCAAAATAAAGCAAATTAATTTTTTTGAAAAAGCTCTTAGGAAACAAATATGTTACAGAAATAGAATTGGGTCTCCAGTTGGAAGGTCAGGCGTCAGATCTGAGCTCCACCTTAGTAAGCTGGGAAAATGGCGTCACTCTTGTACCCTCGTCTGAAGAAGGAGCCAGAACTGTTGGCCTTTTCAGATTTGGTGAAAATAATTAAATAAAACAGAACCCATGTGAAACCAGGTTTAAAATGCTCTCCATTTTTGTCCTTTTTGACTTTAG
Seq C2 exon
AGCCACCTGTATCGAAATGGTGACATCACTAGCATATACCCATCATGGACGACAATACTTGGCTCAAGAAGGAGTCATTGACCAGATATCCAATATAATTGTTGGTGCAGATTCAGACCCTTTCTCTGGCTTCTATCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018809:ENSRNOT00000025433:5
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(10.6=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(14.1=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:
TCTGTGTCATCAGAATCGTTAAATT
R:
GCAGATAGAAGCCAGAGAAAGGG
Band lengths:
232-1996
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]