MmuINT0004962 @ mm10
Intron Retention
Gene
ENSMUSG00000070332 | Trim80
Description
tripartite motif-containing 80 [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115445016-115445544:+
Coord C1 exon
chr11:115445016-115445111
Coord A exon
chr11:115445112-115445310
Coord C2 exon
chr11:115445311-115445544
Length
199 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
TCCCTGCACATCTACCTCAGAAA
3' ss Score
5.97
Exon sequences
Seq C1 exon
GTGGAAGTTCGGAAGATTCAGGCCAATGTGGAGAACCAGATGCTGATCATTGCCTCTGACAGTCAGAAACACCAGGGACGAGTGAGTTTTCTCTCG
Seq A exon
GTAAGGCGAGCTACCACTGCCTCCACCCAGGCTTATCCCGGCATCTTCCACGGGGCCCCTGGGACCTCCCAGAAGCCACGGGATTACGGGGAGGAAGAGCAGTGGGCAGAAACAGGATGCTTGAGATATCTTTGGACCAGTATAGTGGAGTACAGGAGTAGGGTCCAGGGATGCCTCCCTCCCTGCACATCTACCTCAG
Seq C2 exon
AAACTGATTCAGACCATGCGAGACGAGGTGGACACCTGCTTCTCAGAGATCCTCCATGAGATTAAACAGCTGCAGATGAAGGTCTTGGATTTTGTGGAGAAGGAGGAGGCGGCCGCCCTAGGAAAGCTGGGCAACTCTATCCAGCAAAGCCACAACCGGCTGCTCAAGTTGGAGGGGGACAGCGTCTGGCTCCACAGCCTGCTCGCCAACAGGAGTGATGAGCAATTCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332:ENSMUST00000093914:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.013
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:
AGAAACACCAGGGACGAGTGA
R:
TTGCTCATCACTCCTGTTGGC
Band lengths:
257-456
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