MmuINT0104485 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75129643-75131793:+
Coord C1 exon
chr9:75129643-75129823
Coord A exon
chr9:75129824-75131699
Coord C2 exon
chr9:75131700-75131793
Length
1876 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TGTTTGCGGCTCTGATTTAGACC
3' ss Score
5.88
Exon sequences
Seq C1 exon
AGTTCTTGAAAAAGGTTTTGAGCTGAAAACACAAGCCTATGAGAAACAGATAGAGTCTCTGAGAGAAGAGATTAAAGCCCTCAAGGACGAGAGGTCGCAACTGCATCACCAGCTGGAGGAGGGACAGGTCACCTCTGACCGCCTGAAGGGGGAGGTGGCCCGCCTAAGCAAGCAGGCAAAG
Seq A exon
GTGTGTGCTGCCTTCTAGCTCCTCCAGAGATGCCCTTGATCTTCACAGAAACAGTAGAAATGCAGAGATTTGGGTACAGAGGGACCCCAGTGGGCTGTTCTTTTGTTAAGAGATTTATTAACACCAAAGAGGGGTTCTAAAGAGAGCTCAGAAGAGGCGTTGCTAGGGAACCCCTTCTTACAGATTCAGGCAAAATGAGGAGGATGGGTAGCCTGTACCCAGGTTATCCTGGATTCCTGGGTGGCAGGGGAGGAGGTATTGGTTCAGCCCTTTAGCTAAGTAAGATGTGTCCATCATACAGGAGGTGCCCCCTGTAACTCTGTCTTGCTAGGGTGTTTGGAAACAACCTTTGGGGAAGTGAGAGTCTGAGTCACAGAGGGTGCTCTCCTTTCTAGCCCCATCTTACTTTAACATCTATATATTCCCAAGGGATCAGACAACAGGAGCATCCATACAGACTGAAGGCACACAGCACCCGGGTACTCAGTTCTCTCCGTCCCAGCCTCTGGGCTGTCTGAAAATGTATTTCATATTTGAAAAGTCAGGTTCTAACACTCTAAGATTGTAACTATACAGTTACTTAAATAGATTGACTAAAAGAATACTACCTATTTAAGTTATAAATTCAGGTGAACCCTTATTGTTTATCATATTATAAACTTATGAATTCTTGTACTGAAGTGAAATTGTTGCTATCCACCATTTACACTGTTACATGAAAATTCACATGGGTGATCAGGAGGACTTCAGGTCTGGGGATGCAGCCTGATTAGTAGACTGCCTTTTTAGCACACAGGAGGCTCCAGCTTTGACTCCCAGAGCACCAAAGTCAGAAACAGTGTCGCACTTCTGTAATCCTAGCATGTGGGTGCTGGGAATCAAGCCCATGCCCTTTGGAAGAGCAGCCAGTGCTCTTAACTGTAGGGCCATCTCTCCAGGCTGATCTTAAATCGGGGGAACTGTGAGCCTGCACTTGGAGGGAGGCACCAGTAGATGTCACTCTCTTCCTCTGATGCTTTAAGAGGTCTGGTTTTCAGAGCTCTTGAAGGTCATTGTCAAGCTCTCTGTGATGCGATCTGAAGAAAATAAGGAAGTGTAAACATTACCTGAAATATGTAAAGAACCAAGAAAAGAACCAAGGCTTCAGCCTGGGCAGTCCTGTGAGCTTGACACATGATCCCAAATGTGTCATTTAACCTTCAGTTCATTTTCTAATCGATGCGGGCTCAGCTTGTTCCACTCACTTCGAGGCCTGCTAGGAGGACTAGGTGTCGAAGTGGAGCACTAGTATTTGATCCCCTCCCTCTCTGAATTGGGAGCTAGAACCTGTCAATACTCCGAATAACAATATTTGAGGAGGGCTTTTTACCCCTGCTACCCCTGAGAATATCTCTATCTGTCTTAGCTACAAAATATGAAAAATACCTTCCTCGAGATGAACTTGCAGAGTGAACAGAGGTGGATGCAGCCCCTTTAACAAGCAGAGATGCTCATGGGAAACTGTCCCTGGTGGTCTTCCCAGGCTGCTTAGCCTCCCCTGCCTCTGTGACAAAACGCCTCCTAGCAATGTACCTTCGCCTTCCGACCTGCAGTTTTACCCGTCTTGCCCTCTGCCTGTCTCATGGCAAACTTGTGATTGTTTCCTTCCGTTACAACAGGGAAGCTCATTCCTGCATCCAGGTAGGCCTGCAAACAGTTGCACAGTTGAGCTGCTTCAGGGCAAGATGTGAGGCTGTGAGAGTAGATAAGATTCCTGCTAGGAAGCCGCATGGAGGCGGGAGGCCACCATATGCTCTGTGACGGGGTGTGCCCTTGCCTGATGAGAAGTGTAACGGCTGTTTTCTCTGCACTGGATCTGTTTGCGGCTCTGATTTAG
Seq C2 exon
ACCATCTCTGAGTTTGAGAAGGAGATAGAGCTGCTGCAAGCCCAGAAGATAGATGTGGAAAAGCACGTGCAGTCACAGAAACGGGAGATGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCTTGAAAAAGGTTTTGAGCTGA
R:
ATCTCCCGTTTCTGTGACTGC
Band lengths:
270-2146
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: