MmuINT0128110 @ mm10
Intron Retention
Gene
ENSMUSG00000026869 | Psmd5
Description
proteasome (prosome, macropain) 26S subunit, non-ATPase, 5 [Source:MGI Symbol;Acc:MGI:1914248]
Coordinates
chr2:34856448-34857829:-
Coord C1 exon
chr2:34857638-34857829
Coord A exon
chr2:34856558-34857637
Coord C2 exon
chr2:34856448-34856557
Length
1080 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TGTCACCTTATCCTTCACAGGAA
3' ss Score
9.69
Exon sequences
Seq C1 exon
GATTTGTGAAGTTTTTTGGAAACCTGGCCGTCATGGATAGTCCTCAGCAGATCTGTGAGCGCTACCCTGTTTTTCTGGAGAAGGTGTTTGAAATGGCGGATAGTCAAGACCCCACCATGATTGGTGTCGCTGTCGACACAGTTGGAATCCTGGGATCCAGTGTTGAAGGAAAACAAGTTTTACAGAAGACAG
Seq A exon
GTTGGTGTGACTTGACTTGGCTTTTGTAAGACATATTTTGGGCCAGGATTTCATGTTCAGGTTCATCTGCTGGTGGGATAACTGTTCTAGAAACTACTTTTGCAGGCGACAGTCTTCTTATCCCTAACATGAACTTGCCTCCCAGAGTCTTGTGATTAGTACTGAAAGCTGTGGCTTTTGCTCCTTACTATATGTAGGCTTTCATCCAACAAGAACCATGTGGTTTGCTGCTAACATTTTCCTTAATTTTATGGCATTGCTCATGTTGTGTTCGAGTTTCTACACTGACGGAAGCTGTATGAATTTCATTTACATAACTTCTCTGGTCACGTTCCTCATTTATCAAAATAGCACAGCAGCAGCTTCTTCAGGGTTTTGAGTATTTCAGAAGCACAGAGAGAGTCAGAAGGAACACTTTGTGTCGAGACCCTTCCGAGCCTGTGCAGGTTGGAACCTTTGACTGCACTCCTCCGTAATGTTTTACCGTGCTGAGCGTCCATTGCTTTTCACTTCGTACCCATGAGGGTAGCCGCTACCTTTATTTTCTTCTAAGCATAACAAGTGTTCAGATGTTAGAAAACAGTATGGAAGTTCCACAGAAAAATTAAAACAGAGCTAGCGTATGAGCCAGCAACTCTGGAATACAATATGGCAAGCAAAGGTTCAAGCAGTGTCTATATACTCCTGTGTAGAGCAGTATCTATCTGCTCAAAGCAATTTAAACCCCATAATGTACGTGGTGGATGAATGAGTTACATGTGTGTGAAAGTGTGAGGCTGTGACAGAAGCTGCAGCACAGAGGCGGTCTAAAGACATTTTGCTAAAACAAGAGGGCCAGGCATGGAGAACAGGTACTGCACGATTCACAGACAAGCTTATGTTAAGCACATAGGGAGGTCAAGTTCATAGCAACAGAAAGCCGAGATCAGGCACCAGGGAGAGAGAAGGGAGGGTGGGGTTTGCTTGTTGGGACCTCGTCTCAGGTTGGGCTGTTGAGAAGGATGGTGGTGGTGGAGCACAGCAGTATGAACGAGATGGGCAGCACTGGTTGGGTTTAATGTGTCACCTTATCCTTCACAG
Seq C2 exon
GAACCCGCTTTGAACGTGTCCTCATGAGAGTAGGATATCAAGCAAAGAATGCTTCCACGGAGCTGAAGATTAGGTGCTTGGATGCAGTTTCCTCTCTCCTGTATTTATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026869:ENSMUST00000028225:7
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=PU(30.9=94.4)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(65.5=100),PF105084=Proteasom_PSMB=PU(4.4=10.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTTGGAAACCTGGCCGTCA
R:
AAATACAGGAGAGAGGAAACTGCA
Band lengths:
286-1366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types