MmuINT0010458 @ mm10
Intron Retention
Gene
ENSMUSG00000006457 | Actn3
Description
actinin alpha 3 [Source:MGI Symbol;Acc:MGI:99678]
Coordinates
chr19:4861223-4861743:-
Coord C1 exon
chr19:4861585-4861743
Coord A exon
chr19:4861504-4861584
Coord C2 exon
chr19:4861223-4861503
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
3' ss Seq
TAATGTCTCCTCTTTTCTAGAAC
3' ss Score
8.82
Exon sequences
Seq C1 exon
GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG
Seq A exon
GTGAATCTCACTCGGTGGAGGGGCTGCAAGGCTAGGACATGACCCAAGACCCATGGTCCCTTAATGTCTCCTCTTTTCTAG
Seq C2 exon
AACTACATTACCCCAGAGGAGCTGCGGAGAGAGCTCCCAGCCGAGCAGGCTGAGTACTGCATCCGTCGGATGGCGCCCTACAAGGGATCTGGGGCTCCATCTGGAGCTCTGGACTACGTGGCTTTCTCTAGTGCCCTCTATGGAGAGAGTGACCTCTGACATTCTCCGTGGAAAAGGAGAGGGGGCACTTCCTGTGGTGGATTCAGCTGTCCCTCAGGGCCAGGCCTTCAGGTCATCCAGTGCCATGCTTCTGAATAAAGATCAGGCTGTGGGCCTCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006457:ENSMUST00000006626:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(35.4=52.8),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(70.1=88.7)
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:
GCTGAACAAGTGGTAGCCTCC
R:
GAAAGCCACGTAGTCCAGAGC
Band lengths:
171-252
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