HsaINT0107513 @ hg19
Intron Retention
Gene
ENSG00000133392 | MYH11
Description
myosin, heavy chain 11, smooth muscle [Source:HGNC Symbol;Acc:7569]
Coordinates
chr16:15833908-15835526:-
Coord C1 exon
chr16:15835320-15835526
Coord A exon
chr16:15834046-15835319
Coord C2 exon
chr16:15833908-15834045
Length
1274 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
CTTTTCCCTCCACAACAAAGGAC
3' ss Score
3.45
Exon sequences
Seq C1 exon
CTGACCGAGGAGAAGAACCTGCTACAGGAACAGCTGCAGGCAGAGACAGAGCTGTATGCAGAGGCTGAGGAGATGCGGGTGCGGCTGGCGGCCAAGAAGCAGGAGCTGGAGGAGATACTGCATGAGATGGAGGCCCGCCTGGAGGAGGAGGAAGACAGGGGCCAGCAGCTACAGGCTGAAAGGAAGAAGATGGCCCAGCAGATGCTG
Seq A exon
GTAAGGTGTCACAGGGGCAGCCCGTGGTGGGTAGCAAATCACTTGACCCTCACCACAGGCCTGTGGAGGTGCATCCAGGGATATGTGTCCCTGCTGGGACAGATGATGAGACGGGGGCTTGGAGAGGGTTGGTCATCTGATCAAGGCCACACAGCTGGGATTGGGACTGGAACACAGTGAGCCCACTCTGTTCTATTGCCCTGCCTTGCATGTGCTAACCCCTTTTCTCCTAACAGCAAGCCTGAATGGAGGATAATTGTATTTGTTAGCTATTGCTACATAACAAAACATGCCAAACTCAGCAGCTAAAAATAAAAAGTATTGCATAGTCAGGAATTTGAGAGTGGCTTAGGTGAGTGGTTCTGGCTGAGGGTCCGGCCTGAGGTTGCAGTCAAGGTGTTGGCTGAGGCTGCAGTCATCTGAAGGCTCATCTGGGGCTGGAGGACCCACTTCTACTTGGCTTATTCACACAGCTGTTGGAGGAGGCCTCAGTTCCTTATCATGAAGGCCTCTCCCCTCAGGGCTGCTTGAGTGTCCTTCCAATATGGCAGCAGAGTTCCCCCAGAAGGAGTGATCTGAGAGAGGAGAAAGGAAGCCGCAATGCCTTTTATAGCCTAATCTCTGAAGTTACATTCCATCACTTCTTCCTGATTTTTGTTGTTGTTGTTAGAAGCAAATCTAACCCCCACTCAAGGGGAGGAGAATTAGGCTCCACCTTTTTGGAGTCGCAAAGAACTTGTGGATAGATTTTAAAACCACCATGGTACCTACTGTGCTCATTTTATAGATGAGGAGGTTGAGGTTCCATGAAGCAGAGCAGCTTACCCAGGTCTTTATTTTTTTTTTTTTTTTGAGACAGAGTCTCACTCTCTTGCCTAGGCTGGGGTGCGATGGTGCGATCTCAGCTCACTGCAACCTCTGCCTCTCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGAGCCCACCACCATGCCTGGCTAATTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAATTCCTGACCTCAAGTGATCCACCCACCTCGGCCTCCAAAAGTGCTGGGATTACAGGTGTGAGCCACCACGCTCAGGCCTTTATTTCTTCCTTTTAGGAGGCTACAGAGTTCTGGGCATCTTCAGGCCTAGCCCCTGTATTCATTAGTCCCCAGATCACCACGAGAGTAAATCTGTTATAACCAAAGCTGTTACTCTTTTCCCTCCACAACAAAG
Seq C2 exon
GACCTTGAAGAACAGCTGGAGGAGGAGGAAGCTGCCAGGCAGAAGCTGCAACTTGAGAAGGTCACGGCTGAGGCCAAGATCAAGAAACTGGAGGATGAGATCCTGGTCATGGATGATCAGAACAATAAACTATCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133392-MYH11:NM_001040113:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.507 A=NA C2=0.457
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=PU(9.5=20.3)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(30.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACCGAGGAGAAGAACCTG
R:
TATTGTTCTGATCATCCATGACCAGG
Band lengths:
334-1608
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)