MmuINT0104419 @ mm10
Intron Retention
Gene
ENSMUSG00000034593 | Myo5a
Description
myosin VA [Source:MGI Symbol;Acc:MGI:105976]
Coordinates
chr9:75209214-75211168:+
Coord C1 exon
chr9:75209214-75209303
Coord A exon
chr9:75209304-75211017
Coord C2 exon
chr9:75211018-75211168
Length
1714 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TAACATTGTGTTGATTCTAGGGC
3' ss Score
8.27
Exon sequences
Seq C1 exon
AAAAGAGGTGACGATTTTGAAACTGTCTCCTTCTGGCTCTCTAACACATGTCGATTTTTGCACTGTTTGAAGCAATATAGTGGAGAGGAG
Seq A exon
GTGAGAAAACCTTAGTGGTAAAAACAACATGTTTTACTTTTTTTGACCTTTTAAAGGGAAAGTTTAAAAATGTTTGAATCATGTTAATTTAATTTCCAAACCCCCAAACAGGAAATGCACTGCTTTGATGATGTTTGCTGTCTCATGGTGAATGGGGCAGTGATGTAGCTTCTTCCTTCCTAGCATTTAAAGACAGCATGTCAAAAGCAAGCCAAGCACCATTCAGAGAGTAATTACCAGAAAACAAGTTGTTCTTTACATGTTGTGTTAGTTTATGAGTTTAGGATTGGGATATAGAATTGTTTAAAGAAATGAATCTTTTTAGGCTAAGTTCCTTAAAGGCAACCAACAGGGGCTAGAGAGATGGCTCAGTGGTTAAGAACACTGACTGCTATTCTGAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAATGAGATCTGACACCCTCTTCTGGTGTGTCTGAAGACAGCTACAAGGTACTCACATATAATAATAAATAAATCTTAAAAAAAAACAACCAACAAAAAATTGTTTATACGCCTGGGCATGGAGGTAGAGAGAGTTGGGTCTCTGAGTTCAAGGACAGCCAGAGCTACACAGAAATCCTGTTTTGAAAACAAAAAAAGAATCACATATGTATCTGTTTGTAGTGAAGTGTTTATTTGTTGTTTGATAGAGTTTAGCCAAGTATAAATCTAAAGTATTGATTAAACTAAAAGCTACTTACTGTGTGTCTAACAGTACTCAGTATATTTTGACATGTAATTGATACAATCATTGGCAGTAAACCCATTTTACAGATGAGGCTCAGTGAGATTCATCCATTAGTCTGTAACCTCTTGACACAAGGAGCAGAGCTGTGACTCTGCATCTGCACAGCTCAGAGACCTGTTGCCTGACCTCACCCCATCCCATCTCCCCATTCTTTGTCAGAAAGGCAGCAAAGAAACTGGTCAGTAATACTCTCTGACAGGCAGAACAAAGGACTGTCACGGCAGGATGGCAGGATATACAGAGATGAGCAGGACATCTAGAACTTGGGCCTGAGGGAGCAGAATCCTGAGAAAGGCCATGAAGGTGATCCTCCTGGCCCCTCATTTAGACTGCGTTATCCACTAAGCTACTCTGTCATTAGGTGGGGCCAGTGAGCCATATACTTAGGGGAAAGTGACTGGAAGATGCACTGCCTTTCTGGGGAGCTCTCCTTCTAAGCCAATGCTATTTGAAAGACTTTTCTAAGAGCTGACTGAAATCATCATGTAGATACCATGAGTTAGAATAAAATGACAAAGCTCAATTGTTTTCTAGTTCATAAAGAAACTATTCTAATCAAGAAGTTTATGCATGTTCCTCTGGGTGTAATTATATGCATAGGACTGTATTTAAAGAGTTAAAGAGTGTTTTCAATTATTTACTTAGTGTTTGGCAGTAGACCTGCTGTTTTATCAATCACATATGTTCTTTCCTTAAGTTAAATTTCCCCATCTTGCTGCTAGAAAGCCTTAAGTATAGATTGCCAAGGTCCTCTGTCATTCAAAGCTAAATAGAAGAGGGTAATGCAGGTGTGAAAACACAGGCAACAGCATTGAGAATAGTGACCCTGGCACGAGGTAGAAGGGATGAGCAGGATGCAGAGTGAGGCAGACAGAGACATTGGCTTCCTGTGCACCACTAACATTGTGTTGATTCTAG
Seq C2 exon
GGCTTTATGAAGCACAACACGTCTCGCCAGAATGAGCACTGCCTCACCAATTTTGACCTTGCTGAATATCGGCAAGTACTGAGTGACTTGGCCATTCAGATCTATCAGCAGCTTGTGAGGGTGTTAGAGAACATTCTTCAGCCAATGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034593:ENSMUST00000123128:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGAGGTGACGATTTTGAAACTGT
R:
TCATTGGCTGAAGAATGTTCTCT
Band lengths:
238-1952
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