MmuINT0004963 @ mm10
Intron Retention
Gene
ENSMUSG00000070332 | Trim80
Description
tripartite motif-containing 80 [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115445311-115446568:+
Coord C1 exon
chr11:115445311-115445544
Coord A exon
chr11:115445545-115446405
Coord C2 exon
chr11:115446406-115446568
Length
861 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGA
5' ss Score
3.01
3' ss Seq
TGCCCATCTCTGCATACCAGGAG
3' ss Score
6.57
Exon sequences
Seq C1 exon
AAACTGATTCAGACCATGCGAGACGAGGTGGACACCTGCTTCTCAGAGATCCTCCATGAGATTAAACAGCTGCAGATGAAGGTCTTGGATTTTGTGGAGAAGGAGGAGGCGGCCGCCCTAGGAAAGCTGGGCAACTCTATCCAGCAAAGCCACAACCGGCTGCTCAAGTTGGAGGGGGACAGCGTCTGGCTCCACAGCCTGCTCGCCAACAGGAGTGATGAGCAATTCCTACAG
Seq A exon
GCAAGAGCCCCCCTCCAGAGAGAGAAAAAGAGATGTACCAGGCCTGGGACAAAGAAATCAGGGCCTGCATCACCTTGCCCACTCTCCAACTGAGAGCCCCAGTTAGACTCTCATCGGCACCTGCTGCTTTTTTTGTACTGCCTGCAGAGATCAGCTATCCCTTCTTTTTCCTCAGGAAAGGATGGAGCAGTGCCCTGGGATTCTGAGTGTGTAATTCAGTCTCCCCCCCAAACCACAGGCAGGAGTGAGGCAAAGGCAGTCTATGTGTTGAAACCTATATTCCTCTTCAGCCATGTTCCTGGTGCTACTGAAGGGTGGGGGTGGGAAGCCAAGGCACAGTGGCTGACCAGAAAATGGCAGTGACTTTCTCTATGCCCAGGGACCTCCTACCACCGACCTCCTTACTTCAACTGCCCTTATACCCCTAGACAGATTTCCTTTTTTTTTTTTTTTTTTTTTGGTTTTCCAAGACAGGGTTTCTCTGTGTAGCCCTGACTGTCCTGGAACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTCCCAAGTGCTGGGATTAAAGTTGTGCACCACCACACCTGGCTCCCTGGGCCAATTGCTTACCTCTCTGGACAACAGGATGGACTTAGCAATGACCTTTATGATTAAAGGCTCGACTCAAACCCTCCTGTTGTTTTCTAAAGCAGCCAGGCTACCATTGGAACCCTAACCTAAGCTATCCAAACAACTAGGAGAGAAATGCTCACATCTGAAAATGGGATTTTTCCTTCCCCTTGCCCATGGAGGTGGGTGCCCCTGGCAGGTGCCTGACCCCCGGCTAAGGGGTTACTAGCTGCCCATCTCTGCATACCAG
Seq C2 exon
GAGTTCCCCAAACTGAAGCACTTCCCTGCCTGCGTGGAACCCTTGCTAGGCACCAACTGTGAGGAGACACAGAGCTTCCTTCAGCTGCCAGAGACCCTGTCGCAGCTCCGGATCAGGCTGATGGACATAGGGCTTAGCTTTATCAACCAGCTTCTCTTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332:ENSMUST00000093914:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 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
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:
GTGGACACCTGCTTCTCAGAG
R:
AAGCCCTATGTCCATCAGCCT
Band lengths:
342-1203
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