MmuINT0004964 @ mm10
Intron Retention
Gene
ENSMUSG00000070332 | Trim80
Description
tripartite motif-containing 80 [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115446406-115446820:+
Coord C1 exon
chr11:115446406-115446568
Coord A exon
chr11:115446569-115446757
Coord C2 exon
chr11:115446758-115446820
Length
189 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGT
5' ss Score
5.85
3' ss Seq
AAGCTTGTCCATCCCTCCAGGAA
3' ss Score
7.95
Exon sequences
Seq C1 exon
GAGTTCCCCAAACTGAAGCACTTCCCTGCCTGCGTGGAACCCTTGCTAGGCACCAACTGTGAGGAGACACAGAGCTTCCTTCAGCTGCCAGAGACCCTGTCGCAGCTCCGGATCAGGCTGATGGACATAGGGCTTAGCTTTATCAACCAGCTTCTCTTGAAGG
Seq A exon
GTCAGTCTCTGCGAGGTCTGGAGTCTGTAACTTGGGAGTGGGCCCTCCTCACCTCTAGTGGTTGTGGCGCCCCACCTGCCTGTGTACCACCCTTCCCAGGTCACATGGGCTCCGGGATGGGCCAAGCCTCTGTCTGGAAGGAGGCTGGGCTGTAAGAGTGGCCTCAGCAAAGCTTGTCCATCCCTCCAG
Seq C2 exon
GAATCAGGATGAGCTCCTATGAGGTGCTGCCCGGAACTGTGGAGAGAAAGACACTGCTCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332:ENSMUST00000093914:6
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAAACTGAAGCACTTCCC
R:
TGGAGCAGTGTCTTTCTCTCCA
Band lengths:
219-408
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