DreINT0121180 @ danRer10
Intron Retention
Gene
ENSDARG00000059046 | psmd5
Description
proteasome (prosome, macropain) 26S subunit, non-ATPase, 5 [Source:ZFIN;Acc:ZDB-GENE-050417-28]
Coordinates
chr21:5209616-5210025:-
Coord C1 exon
chr21:5209916-5210025
Coord A exon
chr21:5209759-5209915
Coord C2 exon
chr21:5209616-5209758
Length
157 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CTTCTTTCTTCTCTTCCCAGAGC
3' ss Score
10.94
Exon sequences
Seq C1 exon
TTGATAGTGGAGGTGTCTACAGTTTCTCCAGTGTCTCTGGGCTACTGCGCTAACAGCGGCTTAATCTCACAGATGCTGGAGGAGCTGACTGGAGATGATGTGTTGGTCAG
Seq A exon
GTAATGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCACACACACACACACACACACACACATACACACACACGCATAGCTGTAGTAATATGATATGACACATTTGTGCCTGCAGAGATTAACCTTCTTTCTTCTCTTCCCAG
Seq C2 exon
AGCAACTGCTATAGAGATGGTGACCAATTTGGCTCAGAGCCAACATGGCCGTCAGTATCTGGCACAACAAGGCATTATGGATAAAATCTCCAACATGATCATCGCTGCTGAATCGGACACCTTCTCAAGCCTTTACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059046:ENSDART00000146061:5
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(14.0=100),PF060257=DUF913=FE(22.9=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(9.5=100),PF124633=DUF3689=FE(32.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGGTGTCTACAGTTTCTCCA
R:
CTGGCAGGTAAAGGCTTGAGA
Band lengths:
246-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]