MmuINT0010451 @ mm10
Intron Retention
Gene
ENSMUSG00000006457 | Actn3
Description
actinin alpha 3 [Source:MGI Symbol;Acc:MGI:99678]
Coordinates
chr19:4863971-4864565:-
Coord C1 exon
chr19:4864425-4864565
Coord A exon
chr19:4864154-4864424
Coord C2 exon
chr19:4863971-4864153
Length
271 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GATTCTTCCTGTTCCCCCAGAGC
3' ss Score
9.88
Exon sequences
Seq C1 exon
AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG
Seq A exon
GTGAGTGAAGGCATTAGGGAAAAGTTTGGGAGGCACTGGATGTGATGAGAGGAAAACTGGTCTCACATTTCATCAACCAAACCTTTGTGTTCCCGGATAATAGAAATAGGAAGCAGGAGGAAACCACCCAGTTATAGAGTGCTGGGTGAGAGGCAAAAGGCATAGGGTTTTGGACGAGTCCTGAACCAACTACTAGGTGTTCTAGCTCCGTGTTCTGTCCCTGTGGCCTGTGATAAATGGGTATACTGGCTGATTCTTCCTGTTCCCCCAG
Seq C2 exon
AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006457:ENSMUST00000006626:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(0.1=0.0),PF0043516=Spectrin=PU(32.1=76.6)
A:
NA
C2:
PF0043516=Spectrin=FE(53.6=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:
GGAGAAGCTCCTGGAGACCAT
R:
GCGAACTGAGGGTGATGTAGG
Band lengths:
293-564
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