MmuINT0104503 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75097540-75098323:+
Coord C1 exon
chr9:75097540-75097696
Coord A exon
chr9:75097697-75098179
Coord C2 exon
chr9:75098180-75098323
Length
483 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
CTGAACCTTGTGTGTTCTAGGCT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GAACAATAGAAATCAGTCCATAATCGTGAGTGGAGAATCAGGAGCCGGGAAGACTGTCTCTGCACGCTATGCCATGAGGTACTTCGCTACCGTCAGCAAATCGAGCAGCAATGCCCATGTGGAGGACAAAGTCTTGGCATCCAATCCCATAACTGAG
Seq A exon
GTAGGCACAGTACAACTGAAGAAGGAGATGCTGAGGGCTGGAGGTGCAGGGGGGTGGGGGCAGGGAGGGAGGTGGTGGCTCTGGGCATGTAGCTATGTTGTTGATGAGACTTCTTCCCTTAAAGACCCAAGGAATGAGGGTGGCAAGAACAGGGATACAAGTTCTGTGTGTGCATGATGTCACTCACATACATACATACTTTTAAAAGAATCGTGGATGTGGGAAGGCACATTCAGTCCGTGACAGCAAGATACATACGTTTCCATATTGCAAGTAGAAGACATGAAAAAGTAAGCTAACTTTTACAGCATTCTACAGATAGCAGAAATGGACCCCAGGGCTGTGAAGCCCAGAATCCATGCTCCTTCAGACTCAGGAGAACCAGGCTGCTCTTCTCCAGCTCCAAGCTTCTCCCCTAACTTGCCCAGCATCCTTGAGTGACATAGGATGTCACTGGTCAACACTGAACCTTGTGTGTTCTAG
Seq C2 exon
GCTGTTGGAAATGCCAAGACCACCCGCAATGACAACAGCAGTCGGTTTGGGAAATACACAGAGATCAGCTTTGATGAGAGAAACCAGATCATTGGCGCCAATATGAGAACTTACCTCCTGGAGAAGTCCAGAGTTGTCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.292
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(7.7=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(7.0=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:
AGAAATCAGTCCATAATCGTGAGTGG
R:
CTGAAAGACAACTCTGGACTTCTCC
Band lengths:
294-777
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: