HsaINT0108837 @ hg19
Intron Retention
Gene
ENSG00000128833 | MYO5C
Description
myosin VC [Source:HGNC Symbol;Acc:7604]
Coordinates
chr15:52539655-52540980:-
Coord C1 exon
chr15:52540897-52540980
Coord A exon
chr15:52539790-52540896
Coord C2 exon
chr15:52539655-52539789
Length
1107 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
ATCCTCTCTGTTCCTTCCAGTTT
3' ss Score
9.11
Exon sequences
Seq C1 exon
GTAGAGTATAAATGTGAAGGTTTCCTGGAGAAAAACAGAGACACCGTCTATGACATGCTGGTTGAAATCCTGAGAGCAAGCAAG
Seq A exon
GTCTGTAAAGTCCTAGGGGTAACTAAAGTTATTATATAATTGACATGGATCTAGATGTATATAAGGAAAGAGTAAGGAGAGAGAGAGAGAGAGTGTGTGTGTGTGTGTGTGTGAACTCTCTGGACAGTGGTAAGTTGTAGCTCACAGATTCAAAAAGATAACTACTGTAAATCTCTACTATATGCAAAATCAGAAATCAAACATGCAGATGACAGGAAGGACAGCTAATAGAACCATTGAAGAATCACAATTCCAGCCAGACGTGGTGGCTCACGCCTGTAATCCCCGCATTTTGGGAGGCAGAGGCGGGTGGATTGCTTGAGGCCAGAAGTTTGAGACCAGCCTGGCCAAAAAAGCAAGACCCTGTCTCTTCTAAAAATATAAAAAAACATTAGCAGGGAATGGTGACATGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGTGGGGAAGACTGCTTGGCCCTGGGAGATAGAGGCTGCAGTGAGCCATGATTGCGCCACTGCACTCTTCTTCTGGGCAGCAGAGCAAGACCCTGTCTCAAAACAAAACAAAACAAAACAAAATATGAAATTCACTCTGAGAGAAGATAAGACATTTAAAGAAATAACTGATACAAAGCAGAAGGTAGTAAGTGCTTTAAATGAGGTACAAATACAAGATGAAGACGGTTCAGAGAAGTTGGGATTAATTCATTCATTGCGAAGTGGGTGGGGCTGGAAAACATTTTAAGAGATTCCTGGGTAGGGTTTGGATCTGCAGGGATGAGAATGTGGAGTAGGAGGGAGGAGATTGCAGGTGGAGACACAGTGTGAGCCAGGCACGGAGGTGAGAATAGTAGATGTTTCCACTTTCTGACACTTAGAGTGATACCCACATACAGACATTTACACACTTTTCTTCTCTGTTCCCCTTCTCGGGAAAGAAGTCACGGGCCATCCCTATGAAAGACGATCGTCTTGTGGAATTGAGATTTGGCTGTAGATGTTGGTGAGGTTGTTCACCGCCCACTAGTTTAGCTGAGTTGTTGTCACCATTTACGTGGCTTGTATGAGTGAGTACTGTGGGCAGTTGCTTTTGGACATTGAGATCCTCTCTGTTCCTTCCAG
Seq C2 exon
TTTCATCTCTGTGCCAACTTTTTTCAAGAAAATCCAACTCCTCCTTCTCCTTTTGGTTCAATGATTACAGTTAAATCTGCAAAGCAAGTCATCAAGCCAAACAGCAAGCATTTCCGGACCACAGTTGGGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128833-MYO5C:NM_018728:14
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=0.022
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(4.0=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(6.5=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:
AGTATAAATGTGAAGGTTTCCTGGA
R:
CTTGCTCCCAACTGTGGTCC
Band lengths:
215-1322
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)