MmuINT0004959 @ mm10
Intron Retention
Gene
ENSMUSG00000070332 | Trim80
Description
tripartite motif-containing 80 [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115440545-115440750:+
Coord C1 exon
chr11:115440545-115440606
Coord A exon
chr11:115440607-115440706
Coord C2 exon
chr11:115440707-115440750
Length
100 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TCTTTTCCTTCTTGGCACAGGGC
3' ss Score
8.49
Exon sequences
Seq C1 exon
AGAGAGACCATGAAACAGCGGCCACAGAGAAAGGAGAGAAGACGGCAATCATCGGTCCACAG
Seq A exon
GTAGGCACAAGAGGATGCGGGACGCCCTCAGAGCTGGTGAGGGAGGCTGCCGTAGGTCCTGGTACCTGAGTCTCTGTGGGTCTTTTCCTTCTTGGCACAG
Seq C2 exon
GGCAACAAAATATCTGGCTCTCATGGACATGCAGAAGATCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332:ENSMUST00000093914:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.944 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:
AGAGAGACCATGAAACAGCGG
R:
TTGAGATCTTCTGCATGTCCATGA
Band lengths:
106-206
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