MmuINT0103259 @ mm10
Intron Retention
Gene
ENSMUSG00000018830 | Myh11
Description
myosin, heavy polypeptide 11, smooth muscle [Source:MGI Symbol;Acc:MGI:102643]
Coordinates
chr16:14228736-14230866:-
Coord C1 exon
chr16:14230693-14230866
Coord A exon
chr16:14228851-14230692
Coord C2 exon
chr16:14228736-14228850
Length
1842 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCG
5' ss Score
8.7
3' ss Seq
GGCAAGGTGACTTTTGGCAGGTG
3' ss Score
0.86
Exon sequences
Seq C1 exon
AACAACCCTCCCGGTGTGCTGGCCCTGCTGGATGAAGAATGCTGGTTCCCCAAAGCTACAGACAAGTCTTTTGTGGAGAAGCTATGCTCAGAGCAGGGAAATCACCCCAAATTTCAGAAGCCCAAGCAGCTAAAGGACAAAACAGAGTTCTCCATCATCCACTATGCTGGGAAG
Seq A exon
GTATCGGCCCGGGGTCTTGAGGAGGGCTCTGTCTCAAAGGTACCTGGGAGGGTGCTTTGGCAGTGGCTGTACCCTCCAAACACTTGTAGCAAGGTGGTTCTCAGTTAGGGGCTCTGTAAGATTTGTCTAAGCAGTTGTCAAGAGTGGAAGTGATGGTCTCTAACAGATGTCAACTGTGCTGACCAGACAGTTCTTCCCTGGGAAGACTCCAAATACTTTTTGCTCCATGGCAAACCCAACAGACAAGGCTCCTGGAGTGAGGGTACCAATGAGTGAGTCTTCCATAGATTCACATGAACCCCTGAAATTACCACTGTGCTCCATCTGGGGGAACTGTGCTAGCTGACTTTATCACTGTTGTGATCATCATCATCATTGTCATTGTCGTCATTGTCATCATCCTGGATATTATGTCCTGAATAGCATAGACATACCTCAGCTCACCTCTGCTGGCACTGCTCAAACAATGGTACACACACATGCAGGCAAAGCATCCACACTTACAATATAAAGATAAAAAATAAAAAGAAAAGCCACAGCTTGTTATTGGAACATAGCCAGGCCAATTTGTTTCCATAAGATCTATGGTTTCTTTGGTGTTAGAAGAGCAGAGTTGAGCAAGACTGTAGAGCCTACCAAACTGAAAATATTTACACTCTGGCCTCTGCCAAGAAGTTTGTCTTCTACTTTACATTATACTTGATGGAGCTTAAGCTCTTTTAACCATGTCCTGGTGATACTTTTCCCAGGCTCCTACATGTTTCTTTCCAGTCTTTTCACAGATCACCATGACAACCCACATCCCATCATAACCCACCAGAGCCATGCTGTCAGTTCACTCTGAGTTGTAGTCAGAGTCATTAAAGATGAGCATTGAGCAAGTCAGAAATTTTGAAACACTCCAGTGTCTATTTCCATATATCCATGTATCAAAACCTCCAAGCTAATAGGCTAAAGGATATAGCTCAGTGCAGAGCACTTGCCTACTATGAAGGTTAGTCTCAAATCTTGAATCATCTTAAAGAGAGTCTCAACTGAGAAATTACCTAGGTCTGGTTGGCCCGTGGACATTTTGGGATGGAAATAATTATGTTGGTTATTAATTCATGGGCAAAGACCTACCCTGATTGTGGGTGGCACTACCTCATGCATGCCAGGAGAAAACTAGAAGCAGGTGGCATGGGCACTTTGCTTCTCTGTGTCCTTCTCTGGATGTGATGCTTTGAGTCCCTGCTCTGTTCTCGATGATGGGCTATAGCTTAAAATCATGAGCCACATAGATCTTTCCTTCCTTAGGCTGCTTTCGGTCAAGGTGTTTAACATAGCAACAGAAAACAAACTAGAACATATACCCTGCTTGACATCCTAGGGTCAATCCCTGGTACTATAATGAACTGCTGTATAGTACAGCCTTAGCTATAAGAATCCTATTCATCAGACAGTGGGAGAATCCCTGTGCTCAATTTAAGAATGAGGATCCTTGTTAAACTGCCCATGCATAGGGGGGATATGGGATATCTACGATGGCTTTTGTCACCATGAGCTTCCTTGGCCATTTCTGGGGCTAAGTGTGAGACTATGGAAGAAGGTGGCATCTCTGAGGCTGTGGAACAGTAAGAGGTTTTTCTGGCACTAGCTTCCACTGGTGGATGCCTAGTATGGCATCCCTATAGTATCCCTGAAGATTCCGACCTACTGGTTTCTTCCTTAATATTGGTGGCAGCCTCAGAAATGTCTCATTTCTCATCTGATGTCTACAGGTGTGAAAGGAATGTGGAAGGATTTGGGCTTTGCAGTGGGTTTCTGAGCCAGGGAACCTGATGGCAAGGTGACTTTTGGCAG
Seq C2 exon
GTGGACTACAATGCAAGTGCCTGGCTGACCAAGAACATGGACCCGCTAAATGACAATGTGACATCACTCCTCAATGCCTCCTCTGACAAGTTTGTGGCTGACCTGTGGAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018830:ENSMUST00000090287:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(8.3=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(5.5=100)
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:
TGGCCCTGCTGGATGAAGAAT
R:
CATCCTTCCACAGGTCAGCCA
Band lengths:
270-2112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types