MmuINT0104489 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75134218-75135949:+
Coord C1 exon
chr9:75134218-75134398
Coord A exon
chr9:75134399-75135855
Coord C2 exon
chr9:75135856-75135949
Length
1457 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGG
5' ss Score
6.63
3' ss Seq
TTAATCTCTCTCCTCTGAAGATG
3' ss Score
8.24
Exon sequences
Seq C1 exon
AGTTCTGGAGAGCCATTTCCAGTCTCAGAAGGATTGCTATGAAAAAGAGATTGAAGGTCTGAACTTCAAAGTCGTGCACCTGAGCCAAGAGATCAACCACCTGCAGAAGCTGTTCAGAGAAGAGACAGACATCAACGAAAGTATCCGGCATGAAGTCACCAGGCTGACATCAGAAAACATG
Seq A exon
GTATGGCCTCTCCACAGCCTGCTTGTCACCATTGTCCCAGAGACATTATTCACTGGTGGAGCAAAAAATCAATTCTCAGCAGCCAAACAACTCATTTTAACTAATTCTCTAGCGACAAATAACTAGGTCAGAAGATAACTCTATATAATGTCCCCAGGTTAGAAAACACTCAGGTTTGCGAGTGTTTGATTACCATGTGGTGGGTGCAAATTGTGTGAATGAGCTTTCTATGTTTAGCTCTAGCTCCAAATGCCTGTAAAGGAACGAAAAGCAGATCAAAGCAAACATGTGGCTCTTGAGGGGGGCATGGTCATGTCAGGCCATCTGTTCATCCCCCAGATGTCCCTGAGTTGTTCCCTTCTTCTTGTGTTTATCTGGTCCTTTCTTCTCATTTGCACCTGCTTTCAGGATACACACACTCATAATGTTTTCCAGATACAAACAAACAAACACATACAGACACAATCCTTTCAAGATACACGCACACATATGCACACAATGCTTTCAGGATCTACACAATGTTTTCAAGATACTCACACAGACACACAATGCTTTCAGGATACACACATACACATGCTTTCTTATCCACGGTGCCTTGCGGTCACCGTCCCATCCATTTCTTTGTGATTGATGGGTCTTCTCAAAGGTCATTAACCACTTTCTTCCACATGTCCTTCTTCATTTTCTCTGCAGCCACTACTTTCTGTTATGTGCTTCTCAGCAACCTGTGGCAATGCTGGCTACTCCCCTGCCTCTGAGATTGCAGAGGATCACACTCGCTGTGGCTACTTCTTCCGTCTCACTATCTGCTGTGGCTTTGCTTCTTTCCTCCTTCTCTGGCCAAACCATAAGTTGGGACATCCCCGGGGCGTCTACAGGAGCTGGAACTGTGCTGCAGTCAAAGGCCTTCGTAGGATGTGTATTCCTGGGATAAACCTTGATGAGGAACCAACAGTGAGGTATTCTGTGTGTTTGGGCCTCAGAGGCCTGTTTAAACTTAAGAGAACAGAAAGAAGAAAAAAAAAGCAACTCTTTTTATCTGGCTGGGTGTGGAAGGGATGAATATTCAAAAAGATACACAACAAAGGAGAATGGAGAGCCCCGGACGACTCCAGCTGCAGAGTGTTCTGAGATAGTGTGCCGTCCTCTTCCAGGTGAGATGGCACTGCCAGGACCTGGAGCAGCTCAGCACAAGGCACCCTTCCCTTCCCACAATGCACCTCTTTCCTTCCCAGGATAGCCATGTGAGAACTGCTCTCTCTGAGCATGCTGGGATTTCTTGAGACCACTACAAAGGTCTTCAGATGAAGGGGGAGGGGATGGAATGTCAACGAATCCCAGTGTCTCCGCTGGCCTCTCACACAGCCCATGTACTCCACACGCTGAACAAGGAGATGGGTGTCTTGGAGAGCATAAACATTCAGGCTCAAGCATTAATTAATCTCTCTCCTCTGAAG
Seq C2 exon
ATGATCCCAGACTTTAAGCAGCAGATTTCAGAGCTGGAGAGGCAGAAGCAGGATCTTGAATCCCGCCTGAAGGAGCAGGCTGAGAAGATAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:29
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=NA C2=0.781
Domain overlap (PFAM):
C1:
PF131661=AAA_13=PU(23.3=72.1)
A:
NA
C2:
PF131661=AAA_13=FE(16.4=100)
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:
TCTGGAGAGCCATTTCCAGTCT
R:
TCTATCTTCTCAGCCTGCTCCT
Band lengths:
270-1727
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: