MmuINT0104419 @ mm9
Intron Retention
Gene
ENSMUSG00000034593 | Myo5a
Description
myosin VA [Source:MGI Symbol;Acc:MGI:105976]
Coordinates
chr9:75057021-75058975:+
Coord C1 exon
chr9:75057021-75057110
Coord A exon
chr9:75057111-75058824
Coord C2 exon
chr9:75058825-75058975
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-Myo5a:NM_010864:36
Average complexity
IR-S
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: