MmuINT0104391 @ mm10
Intron Retention
Gene
ENSMUSG00000034593 | Myo5a
Description
myosin VA [Source:MGI Symbol;Acc:MGI:105976]
Coordinates
chr9:75146865-75147937:+
Coord C1 exon
chr9:75146865-75147130
Coord A exon
chr9:75147131-75147855
Coord C2 exon
chr9:75147856-75147937
Length
725 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTATATTTTTGGTATTACAGATT
3' ss Score
6.85
Exon sequences
Seq C1 exon
CCCAAGCACGAACCTCTTACCATCTTCTGTGACCTTATGGGTGTGGATTATGAAGAGATGTGTCACTGGCTCTGCCACCGAAAGCTGGCTACTGCCACAGAGACATACATCAAGCCCATCTCCAAGCTGCAGGCCACAAATGCCCGAGATGCTTTAGCAAAGCACATCTATGCAAAGCTCTTTAACTGGATTGTTGACCACGTCAATCAGGCTCTCCATTCTGCTGTCAAGCAGCACTCTTTCATCGGCGTGCTGGACATCTATGG
Seq A exon
GTGAGTGCATTTGGCTGGCTGCCCTACTCTGCTGGAAAGCAGTTGTTTGTTTGGGGGTATTTTGTACCTCTGAGCACTGTTTAATTTTGTTTTCTACTGGAGAAGAGAAGGAAATCCTAACTTATAACCATTCAGAAGTGTCTTTGATAATGGAGATATAATGATGCAAAAAAAAAAAAAACCCTTACACATTGCTTAAACAAAAATTAACTCAGCTCCAGAATCTATCTACAAAGCTAATAGATTGAATTAATTGGTTTTCACACTCTTATATGGCAAATTATTGAATTTCTAAAAATATGATTTCATTTCTAGTTGCATTCTGTAACATTGATATTTTTTGTACATGGACTTGTTTGGCAGCTAATTTTTCACTCTCTGGTTCAGATTTTCAGAAGAACCTGTTAGGTTTCTGTTTCTACCTCCCACTTCTCTGTGAAATGTTTGGAGTATAAATTGACAGGAACTGTTGCTTTAGCATTGATTTGTTGTTTCCTACTGGATATGAAGGGGCCTCAAAAAGCCAAGGCTATACATCCTTAGGCAGGACTGTCTCAGCTGATGCTCATCCTGTGCTGACTCTCCAACTTACAGACTTTTATCAGATATGGAGAAGATAATGTTAAGAGACTTCACATTTTTCTCTTTCAAGTGTGCATATTTTAAATATTTTTTTAAAACTGTTCTTTTTCTTTTCTTCCTACCTTATATTTTTGGTATTACAG
Seq C2 exon
ATTTGAAACATTTGAAATAAATAGTTTTGAACAGTTCTGCATAAATTATGCAAATGAAAAACTACAACAACAATTCAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034593:ENSMUST00000123128:10
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=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(12.9=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(4.0=100)
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:
CCCAAGCACGAACCTCTTACC
R:
TGTTGAATTGTTGTTGTAGTTTTTCA
Band lengths:
346-1071
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