MmuINT0169150 @ mm9
Intron Retention
Gene
ENSMUSG00000042572 | Ube2q1
Description
ubiquitin-conjugating enzyme E2Q (putative) 1 [Source:MGI Symbol;Acc:MGI:1917343]
Coordinates
chr3:89579999-89580538:+
Coord C1 exon
chr3:89579999-89580103
Coord A exon
chr3:89580104-89580433
Coord C2 exon
chr3:89580434-89580538
Length
330 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TTTAATGTCTCTCCCCCCAGCTC
3' ss Score
10.47
Exon sequences
Seq C1 exon
GAATCATACCCTGCTGTGCCCCCCATCTGGTCGGTGGAGTCCGATGACCCTAACTTGGCTGCTGTCTTGGAGAGGCTGGTGGACATAAAGAAAGGGAATACTTTG
Seq A exon
GTGAGGGGGGCAGTGGGGAGGAATGTGTGTGTTCCTGAAGAGGCTTCAGCAACTAACGTTCCCTGTGAGGCAGCTAGTTTTGAAGAGTGGGTGGTGCCCCAGGTGGAATGTCTTGGACCTTACTTCTTAGGAGAGTTGCCTACTGAAGCCAGAGGGGGCAGAGTCCTGTAGCAGCTCCAGGATAGGTCCACTAGGGAAAGTCATTCCTATAACCACAAGGTCCATCCAGTGTAGAGAACCAGCCACCATTTTGAGATCTAAGCTAAAAGCTCATCCATGCAGCTATCCAGATTGTAGTAGGAAAGACGTATTTAATGTCTCTCCCCCCAG
Seq C2 exon
CTCTTGCAGCATCTGAAGAGGATCATCTCTGACCTGTGTAAACTCTACAACCTCCCTCAGCATCCTGATGTGGAAATGCTGGATCAGCCCTTGCCAGCAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042572-Ube2q1:NM_027315:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.343
Domain overlap (PFAM):
C1:
PF0577317=RWD=FE(27.4=100)
A:
NA
C2:
PF0577317=RWD=PD(14.5=51.4)
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:
GAATCATACCCTGCTGTGCCC
R:
TCTGCTGGCAAGGGCTGATC
Band lengths:
206-536
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: