MmuINT0104480 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75123278-75123855:+
Coord C1 exon
chr9:75123278-75123443
Coord A exon
chr9:75123444-75123708
Coord C2 exon
chr9:75123709-75123855
Length
265 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TCACTGAGCTCCCTCTCCAGTTG
3' ss Score
6.08
Exon sequences
Seq C1 exon
GAAGGCCATCACTGCCACTGCTTTGAAGGAGGCCTGGGCGGCCATCATCCTCCAGAAGTATTGCCGAGGCTACCTGGTCCGTAACCTGTACCAGCTGATCCGTGTGGCCACCATCACCATCCAGGCACACACCAGGGGCTTCCTAGCCAGGAGGCGGTACCGGAAG
Seq A exon
GTATGGAGTGGACTTAGGCTGCTGTTCTTCACTGTTTCTTCCTCAGTGCAGGGGTTCTGGTGAGAGAGGTGTCCTCACTGTCCTGGGGGTTTGCCTGAGAGGTTGCTTTAAAAGTCTGGGATGAAGGCTCAGTGGGTCAATGTCAATGATGGGAGACTCCTGGTCTGCACTGTGCGAGTGCTCCAGGGCTGGCTTTCCCAGTGATGAAGGACCTGCAGAGAGAAACAGGAGGTCTGGCTGACATTTCACTGAGCTCCCTCTCCAG
Seq C2 exon
TTGTTGCAGGAGCACAAGGCAGTGATCCTGCAGAAGTATGCGAGGGCCTGGCTGGCCCGGCGCAGATTCCAGAACATCCGCAGGTTCGTGCTCAACATTCAGCTGACTTACAGGGTCCAGCGCTTGCAGAAGAAGCTGGAGGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:20
Average complexity
IR-S
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:
PF0061222=IQ=WD(100=37.5),PF0061222=IQ=WD(100=37.5)
A:
NA
C2:
PF0061222=IQ=WD(100=42.9)
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:
CACTGCCACTGCTTTGAAGGA
R:
CCTCCAGCTTCTTCTGCAAGC
Band lengths:
299-564
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: