Special

MmuINT0104490 @ mm9

Intron Retention

Gene
Description
myosin VC [Source:MGI Symbol;Acc:MGI:2442485]
Coordinates
chr9:75092777-75094089:+
Coord C1 exon
chr9:75092777-75092942
Coord A exon
chr9:75092943-75093944
Coord C2 exon
chr9:75093945-75094089
Length
1002 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CACTTCACCTCTTTCCTCAGGAA
3' ss Score
9.02
Exon sequences
Seq C1 exon
GAGCTGGAATACCCTGTTGACCCAGGGTCACTGCCTCCGCTTCGGAACCCTGACATCCTGGTGGGTGAGAATGACCTCACAGCCCTCAGCTACCTCCATGAGCCCGCAGTGCTGCATAATCTCAGAATCCGCTTCGCAGAGTCCAAACTCATCTACACCTACAGTG
Seq A exon
GTAAGGATACAGTACGACACCCTCACCCCCAGGCCTACCGTCTGCGTGCCCCGAGCACTCTCGATGCTGAGTGTTGAGAGTGTGTGTAAAAAGAGGTGTCTGTGTAAGGAGAACTGCTCGTGGGAACGAAGATGGACTAGGAGGAAAGATCACCATGGGCTCGTGTCTGAGTCTCTCACCACATCCAACACACTTATTACTTCTTGGGACATTGTTGTCATTGTTACATTTACGTTGGGACTTTCAAAAACGCAGTTCTTTTCCCCATGTGTCACCCCACCCAGACATCAGAACAGCCTTAGAGGAAGGTGACTGTCAGATAACCGAGATTCAGAGCATTGAGTGACTGGACCCAGGTCAAGCACAAGCTTTCAGTGAAGAACTGGAGAGGCAGGTGGATCTCTGAGTTCGAGGCCAGCCTGGTCTAGAATGAGTTCCAGGACAGCCACGGCTACACAGAGAAACCCTGTCTCGACAAACCAAAAAAAAAAAAAAAAGAATTTAAAAAGAACTGGGACTTCTGGAAAAAGCCTGTGGGGGGCGGGTGTCTTCTTCTATTTTCTGTTGCTGTAATATAGAATATCTGAGACTAGATAACTAACAGAGAACAGAAGTTTGGTTCGTGGCTCTGGAGGCTGAAGAACACTGCTGGCACCTACTAAGCACCTGGTGAGGGTTTCCTGATGTGAGGCAGAGCAGGTGTACAGATGCCAGTCTCTGTGGGGTCCCCAATCCTCAGGACCAAAGACGGATCTCCAAGTGCTAGTAACATGTGAAGGGTGAGCAGTAAGTTCCCAGCCCACTGACTGCTGGAAGGACAACCGTGGATAGGGGAGGTCCCTGAAACCAAAGGCCAGCCATCTTGATTATGTTCCATAACCTATGTGCATCAAGAGTTTGACATAAAAAGAAGGTGTATTCAAGGGGGAGGTCACCCGCAAAGGAGCGGCTGGGATAAAACTCCAGGCGAGTCTGCTAACCGCACTTCACCTCTTTCCTCAG
Seq C2 exon
GAATCATTTTGGTGGCCATGAATCCTTACAAACAGCTACCAATATACGGGGATGCCATCATCCACGCCTACAGCGGACAGAACATGGGTGACATGGACCCACACATCTTTGCGGTTGCAGAGGAGGCCTACAAGCAGATGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033590-Myo5c:NM_001081322:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0006316=Myosin_head=PU(4.9=58.9)
A:
NA
C2:
PF0006316=Myosin_head=FE(7.1=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGGAATACCCTGTTGACC
R:
CTGGCCATCTGCTTGTAGGC
Band lengths:
310-1312
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