MmuINT0104498 @ mm9
Intron Retention
Gene
ENSMUSG00000033590 | Myo5c
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75143817-75145493:+
Coord C1 exon
chr9:75143817-75143967
Coord A exon
chr9:75143968-75145210
Coord C2 exon
chr9:75145211-75145493
Length
1243 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
GCCTTCCGCCCTTCTGGCAGTGC
3' ss Score
7.88
Exon sequences
Seq C1 exon
GAATTCATGAAGTATAACAGCCCACAGCAGAATAAGAACTGCTTGAACAATTTTGATCTTACAGAATACAGACAGATTCTCAGTGATGTGGCCATACGGATTTATCATCAGTTCATCATTGTGATGGAAAACAACCTCCAGCCGATAATAG
Seq A exon
GTAAGAAGAGAATAGGACCGAGAGATTCTTCTATCGTAATATCGAAGCTGTTTGTTTTGAGACAGAGTCTCCTATGTCCTCAGCTGGCCTTGAACTTGATATGTAACTATAGCCAAGGAAGGTCTTGAACTCATGATTCTTCTGCCTGTATTTCCTAAGAGCAGGGATTTCAGGTATATGCCATCATGCCTGGTTTTGCTTGGGACTGGGAATCAAACCAAGGCTTCATGCAGAGTAGGCAAGCATTCTACCAACTGAGCTACAATCCCAGCCCAAGAGACTTTTAAAAATAGAAACTGCGTGTGTGGTATATGTGCTTATGGATAACATAGCTCAAAAAACTAAGAAGAAGTAATCACCATAAATGTCTACCTTTCAATTCTTAGCTTGCTTAAAATGACTCTATAAATCCTAGTACATAGTTGACCTTTTTCTTTGTATAAGTATGCCTTTTTCCTGAAGAAAACCCTATGGAGAAGTTACACTATTTATTTTATGTGCTGTGTGGTTTCTTATGTGGCTGTACCAAATATTTTTTGAAATCCGCAAATCCCACTCACATTTGTGTATAATTTACTCCACTCTGTAAAACTTAAATATCTTGGGGTTTGATGACTCCAGACCCCGACCTACTTGCTGTTAGTTAGCAGCTCTCTTTCCCATGAGAACCACTGTTTCGAGCCTCCAGGAAGTGCCCCTGCCCTTCTGTAAGCTGTGATTCAGGCCCTGGCATACTCTGGTACCCCAATGTATTCAGTTATTTTTTAAAGTATTAATACATTTTGCTTGTTTGTTTCTATGTCAAAAGAAATAATAGCACACATATAAGATTTTGACTCACATATTAAGGAAACACGATCCACCAAGGCAAGAATGCCAACTTGGCAGGACCATGAGTCAGCTGCTCATACTGCATCCACCATGAGGAAGCAGAGAGAGAGAGATGCTCGAAGGAGCTCAGATAGCTTTTTTCCTCTTATTTAGTCCAGGACCCCATGCATGAATGCTTCTGACCTACACATAAGGTGGGTTTTCCCACCTGCATTTACTCAGTCCTGGAAAATCCCTTATAGTCAGGCCCAAAAGTTTGTCTCCTAGTCTAAATCCCATCAAGCTGGCAACCAAGGTTAGCCACACCACTCTATCACAACGATACCCACTGACTATGAGCAAAGACACCTGAGATTAGGGGACGTGTGACCCGGCTGACCCCTGTGTAAGGAGCCTTCCGCCCTTCTGGCAG
Seq C2 exon
TGCCAGGCATGCTGGAGTATGAGAGCCTGCAGGGCATTTCCGGCCTGAAGCCCACTGGTTTCCGGAAGCGCTCATCCAGCATCGACGACACAGATGCCTACACCATGACGTCCATCCTGCAGCAGCTGAGCTACTTCTACAGCACCATGTGTCAGAACGGCCTGGACCCCGAGATTGTGAGGCAGGCGGTCAAGCAGTTGTTCTACCTGGTCGGGGCGGTGACCCTCAACAGCCTCCTCCTGCGCAAGGACATGTGCTCCTGCAGGAAAGGCATGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:37
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:
NO
A:
NA
C2:
PF0184314=DIL=PU(31.1=34.7)
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:
CTCAGTGATGTGGCCATACGG
R:
GATCTGCATGCCTTTCCTGCA
Band lengths:
354-1597
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: