DreINT0121178 @ danRer10
Intron Retention
Gene
ENSDARG00000059046 | psmd5
Description
proteasome (prosome, macropain) 26S subunit, non-ATPase, 5 [Source:ZFIN;Acc:ZDB-GENE-050417-28]
Coordinates
chr21:5210103-5212244:-
Coord C1 exon
chr21:5212131-5212244
Coord A exon
chr21:5210232-5212130
Coord C2 exon
chr21:5210103-5210231
Length
1899 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TATTTGTGTCTTTTTATCAGGCG
3' ss Score
7.88
Exon sequences
Seq C1 exon
ATTGGCCGTGTGGCTGGACATGCTGAGGGAGTGACGCAGATGCTGAACAATGTAGAAATCCTGCATGACGTGATTCAGTGCATCAGTGTTGAACGCATCGCTGTGGCCAAAGAG
Seq A exon
GTACAGAGATAAACAATGACACACAATGGCACACTATGCCCTATGTACCTATGCACTAATATATGTATGTAGTATCGTCCCAAATGAAGCACTAATGATTTTTTACTTAGCGGAAATTCAAACCATTTCCCAGATGACGTTTGCTGGTTGCCAAATTAGTGAAATAACTGACCAAAGTACCAAATAATACCTGCCACAAGTATAACCCATATAGACTGTAAAATATATGGACGTAGTATCCGTGACGTCACCCATAGGTTTCTGAACATGCAAAAGAAGCCACAAGTAGGCGCGGCCAATCGTCGCCATTTTGTTCACGCGTCATCGCACCCACAGCGGGAAAACAAACAAGAGCAAAGAGGCGGAAAGTGAGCGGAGCTACAGACACCTGCTGGCATTTTGCTTGGACCTGGCTTAGACAGACATTTGGAAAACGCTTAATACTTTATTACCTGCGACTCGTTTATGTTCTGACCACTTGTGCTTGGCTGTACACTATATCAATAAAGTGTTCAGTCTTTTAAAAACACTGCTGTAACACATTGAGCCACTAAACATTGTTCTTATGACGTTTTTCTACAGGAGGAAAATGCTAATTACTTCTTACACTTACACAAATACACTTCAGATATAGTCTGTGTTAGTAAATGCAGGACTATTGATGAATTATAAATGATCCTAAATAAAACAAAAACATTTTAAAAAATGGCATATACGTATATAACTTTACTCACATGGGAAATAGAGGCCACTTGAATGGTTTGTGAGAACAATTAAGTGCACACAGCACGCCATGCCATCTGATAATTGTAAGAAATAAGTCCAAAAGGCAACACAGTGTAAAGCCACATAAAACAACACAAAACTATAATCAATATGTCGAGTTCAGTGACAAGTGGCTTTTAATTTCATGCAGATTTAAAATAAGAGTAGATGCGTCCCAAATCACATACTTAAGAACTATTCTACTACCCCATTTTGTAGTATAGATAGTGTTAGTATTGCGTTCGCACAGAAAACTAAACAGAATAAGTGCACTTTAAATACCCGGATGATGCATTTTTTCAACCAGTAAAAAGAAGTGTGGAGTGGTGGACACTTCACACACTCAACGGCCACACACACATAGCGGAGTCAGCTGAGGTAAAGTGACGGCGACCAGCGAGACCTAGCTGTCACTCAAGTGGCCACGCCCTTCATTATTCAAACTTAATATAGCCTAATTTAAAGGAAACAGATGAGTTATAACGAAATTCACCCCCCTCACAGTTGTCATAAAGGGTAATATTAGCTTTATGAACCAAAATCGTTCTTTGTACCAGGCTGTAAACACCTTTTTTCTGCTGGAAAGTTGGCCGTTCTAACAGTGGGCTCAATTGAAATTTGCTCTATTATGGAGCCAGGACTAGCGGAAATTTCGATTAATTGCAGTTTCAGTTACTTCCGTAATGGCTTCCCGAGGGAGAGCGGGTGGTTGCCGCTTGGTATAACCGCATTAACCATCAGGAGGTGCTATAATCACTCTCGTAGAAGAATTTTGCTTTCACAATCCATCATAAACTAATCCAACATTACTGCCTGAAAGCTCCGCCCCTTCCTCTACATGAGCAGAGCTGTGGTCATTGAGTGTATGAAGTGTCCACCACTCCACACTTCTTTTTACTGGTTGAATAAGTGCATCATCCGGGTAATTAAAGTGCACTTATTCTGTTTAGTTTTCAGATTTATCGCACTACTTACACTATCTATACTACAAAATGGGGTGGAATAGTTCTTAAGTATGTGATTTGGGACGCACCTACTCTCATTTTTTATCCGCATGAAAGTAAAATTCACATTTTCTCATTTTAAATTAAATTAAATGCGTGTTTTGTCCTTTTATTTGTGTCTTTTTATCAG
Seq C2 exon
GCGATCGCCGCACTTAGTAAACTCAGCAACACGAAGGCGGGGCTTGATGCTTTGTTCCGCTCTGATTTGCTGAACAAGCTGAAGGATGTGATGCTCACCAGTGACATCATCAGATACAGAGTCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059046:ENSDART00000146061:3
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(14.4=100),PF147691=CLAMP=PD(14.3=26.3),PF060257=DUF913=PU(18.5=76.3)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(8.3=100),PF124633=DUF3689=PU(17.8=60.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTGTGGCTGGACATGC
R:
CTCATAGACTCTGTATCTGATGATGT
Band lengths:
238-2137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]