MmuINT0010454 @ mm10
Intron Retention
Gene
ENSMUSG00000006457 | Actn3
Description
actinin alpha 3 [Source:MGI Symbol;Acc:MGI:99678]
Coordinates
chr19:4862324-4863314:-
Coord C1 exon
chr19:4863135-4863314
Coord A exon
chr19:4862471-4863134
Coord C2 exon
chr19:4862324-4862470
Length
664 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CCCTGTCTCTCACTTTCCAGCAC
3' ss Score
10.71
Exon sequences
Seq C1 exon
GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG
Seq A exon
GTAGGGTCTCACCCTTGGGAAAAAGGGAAGGGAAGCCTGGCCTGATGACAGCTGGAGAGAGCCTGTGTGTCCCAGGAGGGTCGCCAATTCAGCCTGGCAACCATTTGTAATGTCCCTCTGGCAATCTGGCTATCCCGCAGTGGAAAGTGACTTGTCTAGTCTAGGTGTGGTGATGCACATCTCTTATGCCGTCACTTGAGATGCTTGAGGATCAGGAGGTCAAGGTCATTCTTAGCTATGTAGCAAGTTCAAGGTCAGCTTGGACTTTATGGTGCAAGAAAGGAAAGAGAGAAGGAGAAAAGAGACATGTTCAAAGTCACAAAGCATTCTAAACTCAGGATTGGCCATGCTGAACAGTCAATACTTAAAAAAAAAAAAAAAAAGTCTAGAGTCTCTTAAGGGAACCTTAGGTAGGGTTAAGAGGTCCAATAAGGGGGAGGATTTGCCCAGGGCCACACAGTGAATTAAGAATACAGTTAACTAGACAGCCAGGTATGGTTGTGCGTATTTTTAATCACAGCATTTGAGATGCAAAGGCAGGTGGATCTCCGTGAGTTTGAGGCTAGCCTGATCTACATAGAGGGTCTCAGGACAGCCAGGGCTACATAGAGACCCTGACCCGAGACCTGGCTACTCCCTGACTGCCCTGTCTCTCACTTTCCAG
Seq C2 exon
CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006457:ENSMUST00000006626:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(56.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(20.2=42.9),PF134991=EF-hand_7=PU(34.2=55.1)
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:
GAAGTAGGACGGCTGGCAG
R:
TCAAAGTGGTTGAAGGAGGCG
Band lengths:
323-987
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