MmuINT0104478 @ mm10
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75273509-75275636:+
Coord C1 exon
chr9:75273509-75273720
Coord A exon
chr9:75273721-75275470
Coord C2 exon
chr9:75275471-75275636
Length
1750 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CTGCCATCTCTTCACCCAAGGAA
3' ss Score
5.79
Exon sequences
Seq C1 exon
GATTCTAACCAGTACCAGTTTGGTAGAACCAAAATTTTCTTCAGAGCAGGACAAGTGGCTTACTTAGAGAAACTCCGCCTGGATAAACTGAGACAGGATTGTATTATGATCCAGAAACACGTGCGAGGCTGGCTGCAGAGGAGGAAGTTCCTCAGGGAGAGACAGGCTGCCCTGACAATCCAACGGTACTTCCGGGGTCAGCAGACAGTGAG
Seq A exon
GTAAGGGAGCGAGGAAGGAGGCACTGGGGTTACACCAGTGACTTCCCAGGTCAACAAACAGTGGGGTGTGCTGAACCCGTGGAGAGCAATTAGGTCATAGGGCTTTGGCTGTCATTGTACCCACGAGGAGGAGCAGCCGAGGACAAGGCCCCTTCTCCTGATCCAGGGACACAGGTGTGAGTCAGAAGTCCCCACCAGTGACCATGAACCTGGATGTGAGATGGGCCTGTCCTGGGTGCCAGCTCTTCCCAGGCTAGGACACTTTCCTTTTTTCTACAATATAATATAGAGATTATTTCATGGTTGTTTTACTTATATTTCTTAGTCATTCATAAATCTCCCTCCTCATGGATTCCTCCTCCTCCATACATTCTGAAGAGAAGAATTCCCTTACTTCCTTACTTTAGGCAGACGTTACATTTTTCCTGTGTGAAGCCAGATAATAACTACTGAAGGCCTTAACAGTTCATGACCTCTGATTCAAATTCTACCATTATAGCCTAAAAACAGGCACATTATTCTGTTTTCCGTAGCTGTAAGAAAGAGCCTGAGGCCCGACTCTTTATAAAGAAAAGGGATTTGTTCAGACCACAGTTTTGGAGTATGGGTTGTTTTGGCCTCTGATAATGGCCTCTATTGTTATGATACAGTGTGACCGAGAAAGTAGCCAGAAACAGCCACGTGGAAGAGGGACCGTGTGCATGGGGCTTCCTCTGGGTATATAAGTCCACTGTCTTCAGGTGTGGTGGTATGTCCTGTAATCCTAACACTCAGGAGACTAAGTCAGGAGAAGGCTGGATTTGAGGCCAGGCTGGGCTGCCTAATGAATACTAGGCCAGTCAAGACTTCAGAGCAAAATAGGTAAGTAGATAAGGGCTGTAGGTGAGAGTGCTTGCTGCAGGTGTAGCAATTAAGAACAGTTTGTATCCAAGCAGCATATAAAAACAGCTGGGCTTGTCCACACATGCCTGTAACCAGGAAGGCGAGAGGACGGCTGGGGCTTGCTGGCCACCAGCCTGGCTTCAGGTTCAGCAAGAGACCTTGTCTCAAGTGAGTAAGGCAGAGAGTGAGAGTGGGGCATCACATTCTCTGGCTTCCATGTACGCGTGCGCCACACACCTCTGCATATGCACCATAAAAAAAAACATAAAAAGATACATTTTAAGATAAAAAGGATAAAACCCACTCCTCCTTGCCTCTGACTCATATGGAGCTATTCAGAGGCCACGTCACCAAGCCACCCCTTACAATCACACTACAAGCAGGGTCAAATGTCCAGCTTGTGAACTTTCCGGAGACTCACCAGAGGCCAGCTCCAGGTTGTACCGCTGAGGCCTGATGGGCTCCGCCGCAGCCGATTTGACCTTCAGATCATAGTCTGCCAGCTCCAGATCTGCAGCTTCCAACCCATCTTCCACAAATGGACAGATGAGCAAACGGGGTTTGCCCAGGCACTGTCTCGTCATCACAGTCTCTGTGGGCCTGCGCTGTGCGCCTGTGCACACATGAGCACCTGGGCATTAACTGGCCCAAGCAGACACCATGTAGGGGATTTCACATGGCTCTTCAGTGCCACACTGAGGTCAGGGTAGACACAGACAGGCCTGAAGTTGCATCAGGATCTGATGGTAGAGATGTAAGAACCTAAGAACCACCCACCCCTGCCACTGAAAGGCGCAACCCACTCTCTGGTTCATGGTGAAGGCTGAGGCTCTGGCCACCCGCTCACACTGCCATCTCTTCACCCAAG
Seq C2 exon
GAAGGCCATCACTGCCACTGCTTTGAAGGAGGCCTGGGCGGCCATCATCCTCCAGAAGTATTGCCGAGGCTACCTGGTCCGTAACCTGTACCAGCTGATCCGTGTGGCCACCATCACCATCCAGGCACACACCAGGGGCTTCCTAGCCAGGAGGCGGTACCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590:ENSMUST00000036555:19
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=PD(2.1=19.7),PF0061222=IQ=WD(100=29.6)
A:
NA
C2:
PF0061222=IQ=WD(100=37.5),PF0061222=IQ=WD(100=37.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTCAGAGCAGGACAAGTGG
R:
CTTCCGGTACCGCCTCCTG
Band lengths:
342-2092
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