MmuINT0171659 @ mm10
Intron Retention
Gene
ENSMUSG00000025437 | Usp33
Description
ubiquitin specific peptidase 33 [Source:MGI Symbol;Acc:MGI:2159711]
Coordinates
chr3:152378844-152379616:+
Coord C1 exon
chr3:152378844-152378889
Coord A exon
chr3:152378890-152379435
Coord C2 exon
chr3:152379436-152379616
Length
546 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TTGAATTGTACTTCTTTTAGATT
3' ss Score
7.95
Exon sequences
Seq C1 exon
GTTGAGGAATGGAGTAAAGTTTTGTAAAGTACAGAAGTTTCCTGAG
Seq A exon
GTATGACTTCATTGTTACTCGTTTATAAGCTGTTTAGGACTCACTGTGGGAGGTTGGGTTGAATATATAACACCATCTAACAGTGTGCTGAGCATTTCACCAGACAGCGCAGGGCTCTGCAAGTCTGAAGTTTACAGCTAGACAGCCGGTGGCATTGAGCTTTGGAAGAGCCATGCTCACTCTGCCACATGACAGATGTGTCTGGAATCAGGTCAGAATTCAGGGGGATATTTATGATTTAACTAATTCATAAACTCTAATTGAGAATATAAAATGGGCCAGGCATGGTGGCTATGCAAATTTCTGTGCATTCCAGGCCAGCCAGGTCTATATAGTAAGACTTAGTCTCTTTAAAATGGGGGGGGGGGAAAGCCCCCAGTCCCCCCAATTGAAATAACTATTTTAAAATAAACATTTAAATGAATGTAATTTTATATGAGAATGCCACATTTTCTTGTTTTTACAATAAAACTTGAGTGTACTTTGTTTCAACCACTACAATCTCTTCTAGTGAGTAATTTGGATGTTGAATTGTACTTCTTTTAG
Seq C2 exon
ATTTTGTGTATCCACCTTAAAAGATTTCGACATGAACTGATGTTTTCCACCAAAATTAGCACCCATGTTTCCTTCCCCCTGGAAGGCCTCGATCTTCAGCCATTTCTTGCAAAGGACAGCCCAGCTCAGATTGTGACATATGATCTCCTGTCAGTCATCTGTCACCATGGGACTGCAAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025437:ENSMUST00000026507:16
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:
PF0044324=UCH=FE(2.9=100)
A:
NA
C2:
PF0044324=UCH=FE(11.6=100)
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:
GTTGAGGAATGGAGTAAAGTTTTGT
R:
TACTTGCAGTCCCATGGTGAC
Band lengths:
227-773
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