HsaINT0108838 @ hg19
Intron Retention
Gene
ENSG00000128833 | MYO5C
Description
myosin VC [Source:HGNC Symbol;Acc:7604]
Coordinates
chr15:52539114-52539789:-
Coord C1 exon
chr15:52539655-52539789
Coord A exon
chr15:52539212-52539654
Coord C2 exon
chr15:52539114-52539211
Length
443 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TCTCTAGCTTTGTTTCCTAGTTC
3' ss Score
5.31
Exon sequences
Seq C1 exon
TTTCATCTCTGTGCCAACTTTTTTCAAGAAAATCCAACTCCTCCTTCTCCTTTTGGTTCAATGATTACAGTTAAATCTGCAAAGCAAGTCATCAAGCCAAACAGCAAGCATTTCCGGACCACAGTTGGGAGCAAG
Seq A exon
GTACTGAGAAGGTGTTTGAGAGTGAGGGGTCTAAAGGCAGGGCCAGGCCCTGGGGAGCCAGGGCACTCAGAGGACCCGCATTCCAGGCCTGGACATGGACAGACGCTGGGGCTCTTCCAATCTAACATGGACTCCACTGCAAAAAGTTCATCGTCGTCATACTTCCACCTCCAAGGCAGCACGCACTGGAGCAAACCACGCTCTTGCACAATAACATGGTTTATTCAGTTCTCTGCTGTCTGGGAGTATTAGTGTTCTGTCCACAACAGTAGGACATGCTGATAAACCACAGTCACGGACTGAAACCTTTCATAATAGGTGTTTATGCATGAGGTTAACTTTTCTTCCTATTGAGTAACTTAACAAGGTTGGGCTGCTTTTTACCGTGATGTAAGCAGTAAATTATTTCAGAGCCATGTTTGATCTCTAGCTTTGTTTCCTAG
Seq C2 exon
TTCCGCAGCTCTCTGTACTTGCTCATGGAGACCCTCAATGCGACGACGCCCCACTACGTTCGATGCATCAAGCCAAATGATGAGAAGTTACCCTTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128833-MYO5C:NM_018728:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(6.5=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(4.8=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:
TTTCATCTCTGTGCCAACTTTTT
R:
AAGGGTAACTTCTCATCATTTGGCT
Band lengths:
230-673
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)