MmuINT0165258 @ mm9
Intron Retention
Gene
ENSMUSG00000020773 | Trim47
Description
tripartite motif-containing 47 [Source:MGI Symbol;Acc:MGI:1917374]
Coordinates
chr11:115969092-115969675:-
Coord C1 exon
chr11:115969580-115969675
Coord A exon
chr11:115969323-115969579
Coord C2 exon
chr11:115969092-115969322
Length
257 bp
Sequences
Splice sites
5' ss Seq
AAGGTCCGC
5' ss Score
5.01
3' ss Seq
TCCTCTGCTCTCTCCTGCAGAGT
3' ss Score
13.05
Exon sequences
Seq C1 exon
GTGGAGCAGTCCAAAGTCCTGAGCGCTGCGGAGGACCGCATGGATGAACTGGGTGCCGGCATCGCACAGTCCCGCCGTACTGTGGCCCTCATCAAG
Seq A exon
GTCCGCGCCCACCCCAATCCCCCTGTGCACCCCTGAAGCAGGCCTCTGAAATCACCACAAGCTCTCACTGTGGTGCCGCCCACTCTAGACGTGCTCGTCCCCACTAAGCAGGAACACCTTGTTTCCTGCAACCTGGCTCAGACCCAGAGCAGGCTGGGGCTGGGTGGGGGCTGGGTGGGCACAAGCAGTCAGGGACGGAGACAGCGGGCAGGCCCGGTCTTTGCCCTCACTGTTGTCTCCTCTGCTCTCTCCTGCAG
Seq C2 exon
AGTGCAGCTGTGGCAGAGCGGGAGAGGGTGAGCCAGATGTTTGCCGAGGCCACAGCCACCCTTCAGAGTTTCCAGAACGAGGTGATGGGGTTCATCGAAGAGGGAGAGGCCACAATGTTGGGCCGGTCCCAGGGTGACCTGCGTAGACAAGAGGAACAGCGCAGCCGCCTAAGCAAGGCACGGCACAACCTCGGTCAGGTTCCAGAGGCGGATTCAGTCAGCTTTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020773-Trim47:NM_172570:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.338
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACCGCATGGATGAACTG
R:
GAAAGCTGACTGAATCCGCCT
Band lengths:
292-549
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: