MmuINT0168769 @ mm10
Intron Retention
Gene
ENSMUSG00000001924 | Uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:MGI Symbol;Acc:MGI:98890]
Coordinates
chrX:20672435-20672971:+
Coord C1 exon
chrX:20672435-20672515
Coord A exon
chrX:20672516-20672815
Coord C2 exon
chrX:20672816-20672971
Length
300 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCTCCTTGGCTGTTTCTTAGGTG
3' ss Score
8.57
Exon sequences
Seq C1 exon
CGTCAGAACCGTTACGATGGGCAGGTAGCTGTATTTGGGTCAGACTTTCAGGAGAAGCTGAGCAAGCAAAAGTACTTCCTG
Seq A exon
GTGAGTGGTCTCATTGGACACCTAGTGTGTTCACCTCCCTTGGTCTCTGCCCACCCCTTCTGGGGTTCTCTTCTGCATAATAAAGGAAAGAGTCTTATCTCTTTAACCTGTTACCTCTTGGTCTCATCTTCAGATTATAAAAGGTCATTTCTTACAGCCCTGGGACTTGGACATGTATGTGGCAGTAGACTTTATTGGTCTATCATATTGCCTCCAGCAGGCATGAGAAACTGTGGGTGGCTTTGTATCCGCTTGTATCACCCTGACTTGCCTTTGTGTCTCTCCTTGGCTGTTTCTTAG
Seq C2 exon
GTGGGTGCAGGGGCCATTGGCTGTGAATTGCTCAAGAACTTTGCCATGATTGGGCTGGGTTGTGGAGAGGGTGGAGAGGTCGTGGTCACAGACATGGACACCATTGAGAAATCAAATCTGAACCGACAGTTTCTCTTCCGGCCCTGGGATGTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001924:ENSMUST00000089217:13
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:
PF0089916=ThiF=PU(4.1=22.2)
A:
NA
C2:
PF0089916=ThiF=FE(35.2=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:
CGTCAGAACCGTTACGATGGG
R:
ATCCCAGGGCCGGAAGAGAA
Band lengths:
231-531
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