MmuINT0104420 @ mm10
Intron Retention
Gene
ENSMUSG00000034593 | Myo5a
Description
myosin VA [Source:MGI Symbol;Acc:MGI:105976]
Coordinates
chr9:75211018-75213074:+
Coord C1 exon
chr9:75211018-75211168
Coord A exon
chr9:75211169-75212791
Coord C2 exon
chr9:75212792-75213074
Length
1623 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CACTTAAAATATCTCTACAGTCT
3' ss Score
5.55
Exon sequences
Seq C1 exon
GGCTTTATGAAGCACAACACGTCTCGCCAGAATGAGCACTGCCTCACCAATTTTGACCTTGCTGAATATCGGCAAGTACTGAGTGACTTGGCCATTCAGATCTATCAGCAGCTTGTGAGGGTGTTAGAGAACATTCTTCAGCCAATGATAG
Seq A exon
GTAAGACCAGTGTCGCTGAGCATCATGGGTGCTTGCTGACAAATGAGGTCAGTGGTACGTACGTGTGACAGGCATGAGTTCATGTGGAGAACATAAAGCGGTAACTGCGACAGAAGTCAGGCTCCACGTGTCTGAAGCACTGGGATCCGTGTTGACTTCCTCTCTAAAGACTAAGCTCTGTCTTCTCTCTAGCAGTAGACTTTGCTCCTTCGTCTAATTGTCAGAAAGACTTCCAGCTACTGTGGCACTATTGCACAGGTCTCCTAGGAGACCACTGAAAACCACGGAGGCTGGGAACACATATAATGCTTCTGATTATATATGTAAATAGAGTGTGACTCCATGCACCTGACTTTATACTCATTCTGGATGGTCATTTATATGTTGTCCTATCTGATTCCCTTGGGATGCACGAATTTGCAGGTTTTTAATGTAGCAAATTTGTGGGGTTTTTTTTTTTTTCCAAATTACCAAGCACTGTTATCTCCAGGCAAGTTAGAGGCTCTTCACTACTTCAGACTTTCATTATTTTCTTCCCTTGACCATGTGGTCTCCACGTTTCTATATTTTTAACTCCCTTAGTGAGCTCACACATTTAATTTTTTCAGAGGCCCATATTTAAAACAGCTAGGGACATAAAAGTCTAAGGAGGCCATATGAGGTGGCAGTTACCTCTTTTCTTGTGCTTTAGAAGTTATAAATTTAAAACACGGTACATTGGCCAAAATGCAGGAAGTAACACAGAGGTGACAGTCAGCCTCCACCAGTCCTTCCTGAATTTGCCTATGTGTACTGGCTGAGCAAATAGCTTGCCTCTAAGCTGTACCCCCCCCCCCCAATCTCCATCTCCCAGTCATCTCATAGCAACAGCAAATGCTTTGAATTAGTATAGGGTTCATGGGGAGCTGAGCTTAGGGCATAGTCATTGAGTTCAAGGGCCTCCCAGGCAGGGGATGGGCATCTCTGAGTAGACATGTCAAAAGCTTTCTAAGGAGGCACTAGCCAGACACTGAGAGAGAGGTGAGACAGCAGTACAAGAGCAGAGACTACGGCTGGAGAAACCAAGGTTATCCCAAGGTCTCACTGCAGTGTGGGGACCTCAGAACAGGAAGGAGCTCAGCTCTCCAGCTCCACACCATCTGCTCTGACAGGCCTTCTCCAAGACTGCTTCCCAAAGCCTTGCCCTTCTTAGTGTTTTCTTATTGGGGTGTTGTTGTTGTTGTTGTTTGAATTAGTAGCTTTTTCTGTAATGACTGAGATCAAATACAAAGAACACGTATTTGACCACTCAAAGCTTTCTCAGATACCACATGCAAGTGCAGTCCCAAAGCTGCTGCTTACTTTAGAAAAGGCAGCAGTGAGATTACTTAATACTGTGGGAGATTTCTGCAGTTAAAAACTTAATAGTTCATTAAAGTTTAACATCCAAAGGCTTATTCTTGGGACAGTTCCTTCTTCTACTATTTTTATCCTCCAGTCATTTCCTAAAGTGTGTGTGTATTTGTGTGTGTGTGTGCACGTGCGCATGTGTGCATGCATGTGCGTATGTGTTTGAGAGAGAAAGAGAGAGAGAGTGTGGGTTTTTACATCTGAATCATCTTAACACTTAAAATATCTCTACAG
Seq C2 exon
TCTCAGGTATGCTAGAGCATGAAACAATTCAGGGCGTATCTGGGGTGAAGCCCACAGGGCTCAGAAAACGAACCTCCAGTATCGCAGATGAGGGCACCTACACACTGGACTCCATCCTTCGGCAGCTCAACTCCTTCCACTCAGTCATGTGTCAGCATGGCATGGACCCGGAGCTAATCAAGCAGGTAGTCAAACAGATGTTCTACATTGTGGGCGCCATCACCCTAAACAACCTCCTCCTGCGCAAGGACATGTGCTCCTGGAGCAAGGGCATGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034593:ENSMUST00000123128:37
Average complexity
IR
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:
NO
A:
NA
C2:
PF0184314=DIL=PU(31.1=34.7)
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:
CAACACGTCTCGCCAGAATGA
R:
GATGGCGCCCACAATGTAGAA
Band lengths:
358-1981
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