MmuINT0010453 @ mm9
Intron Retention
Gene
ENSMUSG00000006457 | Actn3
Description
actinin alpha 3 [Source:MGI Symbol;Acc:MGI:99678]
Coordinates
chr19:4863135-4863544:-
Coord C1 exon
chr19:4863410-4863544
Coord A exon
chr19:4863315-4863409
Coord C2 exon
chr19:4863135-4863314
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CTTCTTGGGTACCCTTGCAGGAA
3' ss Score
7.49
Exon sequences
Seq C1 exon
GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG
Seq A exon
GTAAGGGCTGGGAGAGCTGGGCCAACACAGGGATTGGCATGAGGGCTGGCCCACAGGGAGGTGAGAGTGCTTATTCTTCTTGGGTACCCTTGCAG
Seq C2 exon
GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006457-Actn3:NM_013456:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
A:
NA
C2:
PF0043516=Spectrin=FE(56.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCCATAGGACCCTGGATCC
R:
AGACTAGGCTCTCCTGCAGC
Band lengths:
183-278
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: