HsaINT0108859 @ hg19
Intron Retention
Gene
ENSG00000128833 | MYO5C
Description
myosin VC [Source:HGNC Symbol;Acc:7604]
Coordinates
chr15:52503927-52505483:-
Coord C1 exon
chr15:52505385-52505483
Coord A exon
chr15:52504082-52505384
Coord C2 exon
chr15:52503927-52504081
Length
1303 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGTG
5' ss Score
-1.33
3' ss Seq
ATTGGCTCTCTCTGCTTCAGACT
3' ss Score
8.75
Exon sequences
Seq C1 exon
CCAATGATGTGCACTCGTCCTCAGGACCCAAGGAGTACCTTGGAATGCTGCAATACAAGAGAGAAGACGAGGCCAAGCTCATTCAGAACCTCATTCTTG
Seq A exon
GTAGTGAAACCTGGAACTCTGGATTTTTGCTTTCTCTTTGAGAACTTGCATATCAGTCAGTGCCAAAGTCCTGGGCAGGGGTGGTCCTTTTTCTACTTTTTCTTCCACTGCTTCTTCCCCCAGCCCAGAGTTTCTCAACCTCAGCACTGTTGACCTGTTAACTCTGTGAATGGGGAGTAACAAAGGATGGAGCAGCATCCTTGACTTCTACTCACTAGAAGGCAGCAGCAACCCCTAGTGATGACAATAAAAGATATCTCCAGGTATTGCCGAATGTCCTGTGGGGGCCAAAACTGTCCTCAGTTGAGAACCACTGCCCTGACCTTTTCCAAATTGTAGGACCAGGGTAGAAGAGAAACATCACCTCATTTTTGTGTCTCAGCACAGGAGCCATCATGGAAGCAATTGTGGCTCTGTGCTCCATTTGACTTCTGAGAAATTTCTCTGCGGGCAATGTGATGGGGCTTCCCAGCCATGCCTCAGTTACAGGAATGTCCCATGTGCATGCTCAAGAGTTGGTGGTCATAGAACCAATCTTACTGCACTGTCTTCACTGTGACCTTCCACGTGGTTTTCTGGCATAGGGAGAAAAATCTGCCTCCCTGTCAGCTGGCCCCAAGATCTCAAAACAGAAAGCCAACGTGTAGCCTTCCTTCCTCTTCTGCGAGTGACCCCCTTGGCTCATATGAGCACCTCTACCCTTTTCTTTCCCCTCATCACTGGTGTCATGCAGTGTGAGCCTCTTCTTTGTTCTTCTGTCTTCCTGCAGCCAGGGGACATCCTTGTTTGCTTATCTTAACTTTTTTTGTAAGATTTCTCTCTCCCCTTCATCCCCACTGAGCGTTTCCACCATTCTGTTCTCCTCAAGGCCAGCCAGGCATCCTCTGCTGCACTGGGTGTGCCTGCTTTCCCTATTCAAGGCAGCTTCATGTGACTGTGGACACTGTACGCCATCCTCATCAAAGCGCTTGGAGTAGGGGTGCATGGAATGGAGTTTCTTTCTTACAATGGGGGTCTGAAATCCAGGGTTTCCACACCAGGGAAAAATAAAGATTCTGTCTCTTATTCAACCTTTTAAGAAAGAGAAAGTCCTTTGTAAACAAGAAGAGGAACAAGTGACACCTGTGTATCTTGTGCCAAGAAAGGAGCCAGATGGAATTCCTCAAAGAGGAAATAAATCCATATACATTCAGGCACTGTGTCAAGCACAGAAAAGCAAACAAGCCCCTGCCCCTAGTCACAAGTTCCTTAGGAGAAGAGCTGACCTGTCAGCTGTAATCCTCATTGGCTCTCTCTGCTTCAG
Seq C2 exon
ACTTGAAGCCCCGTGGCGTGGTGGTGAACATGATCCCCGGGCTGCCGGCTCATATCCTGTTCATGTGTGTGCGCTACGCAGACTCTCTGAATGATGCCAACATGCTGAAGTCCCTCATGAACAGCACCATTAATGGCATCAAGCAGGTGGTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128833-MYO5C:NM_018728:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF131661=AAA_13=PD(6.2=38.2)
A:
NA
C2:
NO
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:
CCAATGATGTGCACTCGTCCT
R:
CTTAACCACCTGCTTGATGCCA
Band lengths:
254-1557
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)