MmuINT0010449 @ mm9
Intron Retention
Gene
ENSMUSG00000006457 | Actn3
Description
actinin alpha 3 [Source:MGI Symbol;Acc:MGI:99678]
Coordinates
chr19:4864653-4865449:-
Coord C1 exon
chr19:4865299-4865449
Coord A exon
chr19:4864762-4865298
Coord C2 exon
chr19:4864653-4864761
Length
537 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGC
5' ss Score
5.3
3' ss Seq
CTACACTTTTGTCCCGTCAGTGA
3' ss Score
6.28
Exon sequences
Seq C1 exon
GCAAAGAGGAAATGTTAAACCAGCACGACTACGAGTCAGCCTCGCTGCAGGAGGTGCGTGCGCTCTTGCGACGTCATGAGGCCTTTGAGAGCGACCTGGCTGCGCACCAAGACCGGGTGGAACACATCGCGGCCCTGGCCCAGGAACTCAA
Seq A exon
GTAGGCGTGGCCAGAGACCCTGCCCCACCCCCTCCTCATTGAGCCCCGCCCTACTTCTCCCTCAGACCCTTGGTAAACAAGTGGTTGCATCCTCTTTCCTTTCCTCTCACACCATTACTGTGCCCTTCTTGAAACGCCATCCCCAGCCCTTTACCCACTCTGCTGCCTGTACTCCACTGTCCCCATGCCATGGGGAAACCTGTCACCCACAACCTGGAAACCCTGTCCACCGCAGGATATTAGCCTACCACCCCAGTCAGCCTTGGCCTCACCAACCACAACCTCCAGTTTCCCTTCTCCCACAACCCTGCTTCTGAAACAGCAGGTGCCACACTGGGACAGCTCCAGGGACTGGAGCTGAGGATTCTGAGTGCCGGTCTTCCTGAAGGAACACACTGAGAGAGCCCAGGAAGAATAGCTCCTCTGCCCCATGCTTGCTCTGGCTACCTAGCCCCATAACTCCTGTACCCTTACCCTGCCTTGGGTCCCACCAGGGTCTGACTCTACACTCTACACTCTACACTTTTGTCCCGTCAG
Seq C2 exon
TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006457-Actn3:NM_013456:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(47.2=100)
A:
NA
C2:
PF0043516=Spectrin=FE(34.0=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:
AGGAAATGTTAAACCAGCACGACT
R:
CTCTAGTGCGTCCCTCCTCTT
Band lengths:
254-791
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: