MmuINT0128106 @ mm9
Intron Retention
Gene
ENSMUSG00000026869 | Psmd5
Description
proteasome (prosome, macropain) 26S subunit, non-ATPase, 5 [Source:MGI Symbol;Acc:MGI:1914248]
Coordinates
chr2:34721047-34721615:-
Coord C1 exon
chr2:34721502-34721615
Coord A exon
chr2:34721176-34721501
Coord C2 exon
chr2:34721047-34721175
Length
326 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
ATACTTTCTTTCTGTGTAAGGCT
3' ss Score
4.6
Exon sequences
Seq C1 exon
ATTGGAAGAATTGTTGAAAATTCAGAAGCTGTTACTGAGATTCTCAATAATGCTGAGCTGTTGAAACAGATTGTTTATTGCATTGGCGGAGAGAATTTATCTGTTGCTAAAGCG
Seq A exon
GTGAGTTCACTAGAGCCTCAGCCAACTGTGCAGACATTGGTGTCCTAAAGTCAGGAGAGAAGCTTACTGCATGGTTTGTAGGGTTAAGGTGGAAATGAATCTGCAGCCTTGTCAGAAACAGCAGTGAGCTTCTAAGTCACCTGTCTGTGTCATCTGTCACACTTGTGTTTGGTTGCTTTGTTTTTACCGGTTATAAATAAATAACAGTAGCAAAAATGGGACTACCTATTGGATTAGGGTATTTTATGTACTAATTTTGACATCGGGCTCAGGAAGCAGATACAACTCTTCTGTACTTTCTGACAGATACTTTCTTTCTGTGTAAG
Seq C2 exon
GCTATTAAATCCCTGTCGAGAATATCACTAACCCAGGCTGGCCTGGAAGCTCTGTTTGAAAGTAACCTGCTGGATGATTTGAAGAATGTAATGAAAACAAACGACGTTGTTCGATACAGGGTCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026869-Psmd5:NM_080554:3
Average complexity
IR-S
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(7.3=100)
A:
NA
C2:
PF105084=Proteasom_PSMB=FE(8.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGAATTGTTGAAAATTCAGAAGC
R:
CATAGACCCTGTATCGAACAACGT
Band lengths:
238-564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: