MmuINT0104494 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75138656-75140059:+
Coord C1 exon
chr9:75138656-75138743
Coord A exon
chr9:75138744-75139960
Coord C2 exon
chr9:75139961-75140059
Length
1217 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCGTTTGCCTCTGTCTGCAGCCA
3' ss Score
9.79
Exon sequences
Seq C1 exon
GATCTCGAGGAAGAGTTAGACATGAAGGACAGAATGATTAGAAGGCTACAAGATCAAGTCAAGACTCTGACCAAGACGACTGAGAAAG
Seq A exon
GTAAGGGGGGATAGCCTCATTGTTTAGAGCTCTTAGGTAAGGCGCTGTGTACGGAAGTGTGTGAGCACTGCCTTGTCCAAAGCCCACAAAGCCCAATGGAAGGAGGCTCAGGGTCAGGCTTAGGACCTAGGGATGAGCTGAAGAGCCTTCGAGGCATCAAAGCTCACCGCGTCCGACACCACATGCTCTCATTTCCAGAGACAACCACAAACAAATACGTTCTTCACCTCCTCGGGTAGCTCCATACTTTCAAAATGAAATTGTAATGGAGTATCCAATGAATCATTTTGAAGACTACACAGATAGCGGATCTCTGAGTATCCCAATGTCTGTTAGCAGAGATAAACAGAAAGGAAGAAGGCAGACATGGCACCTCAGCTGAATGGTGTGTGTAGCCATAAGACCCAAGGAAAGGAGCCTTCCTTCCCTCTGCCTTGGAGTCCATGTCCGAGCCAGTGTTCTGCTCTCATCTCCTGCTCTTCACACTTCCCAGCACAGGCTGCACCTAAAACCATCTCTTTCTTTTCCCATGCTCGTTCCTTTGAAGAGCTCCTTTATTCGTAGGAAGTCCACATTAATCTTACATTTGAAATAGAGGCAGACACAGCCACTGTCCTGTAAATGCTTCAACTGAGTAGAGACTCTTTCCTCTTCAGGAATAGATGTTCCGTGCCAATCTGCCCCATGAGAGCAGGACCAGGTCTGGGTATCCTGTCCTTTATGGCTCTACTGTTGGGACTGGTGAATGGATGAATTCATGGGTAGATAATGGACTGATGGATGAATGGACGATGGGTGGATAGACGGATGGTGTGTGGATAGAAGATGACAGATGGATGATAGGGGATGGATGGATGGGTGAAAGGTGAATGGGTGGATGGATGGAAGATAGATGAAGGATGGATAGATGAATGGAACCTTGAGCTACATTCTCTGAATAATGCCTACCCAAACCCACATCTAACCCTCACTTCTTTTCCTAAGCCCCAGATTCAGTTTGTCTCTTTGACTATTTTTTTTTTCAACTCAATACATTTCAGGCAAAATCTTTTCTGCCTGTATCAGTTATCCATTATTATGTAACACATTTCCCCCCAAACTTAGCAGTCCAACATTAATACCACTACATCTGTGATTATATGGCTCCTATATCTTCACTATGAATCCGGGAAGTGTGGTTTCTGTGTATGTAGCTGACCGTTTGCCTCTGTCTGCAG
Seq C2 exon
CCAACCATGTGCACCTGCCCTCGGGATCCAGGGAGTACCTGGGGATGCTGGAATACAAGAAAGAAGATGAGGGGAAGCTCATTCAAAACCTCATTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:33
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.600 A=NA C2=0.176
Domain overlap (PFAM):
C1:
PF131661=AAA_13=FE(15.3=100)
A:
NA
C2:
PF131661=AAA_13=PD(2.6=14.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GATCTCGAGGAAGAGTTAGACATGA
R:
ATGAGGTTTTGAATGAGCTTCCCC
Band lengths:
182-1399
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: