HsaINT0108862 @ hg19
Intron Retention
Gene
ENSG00000128833 | MYO5C
Description
myosin VC [Source:HGNC Symbol;Acc:7604]
Coordinates
chr15:52497062-52498163:-
Coord C1 exon
chr15:52498013-52498163
Coord A exon
chr15:52497345-52498012
Coord C2 exon
chr15:52497062-52497344
Length
668 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
GCCTCCCTGTCTCTCCGCAGTTC
3' ss Score
12.08
Exon sequences
Seq C1 exon
GAATTCATGAAGCATAATAGTCCACAGCAGAATAAGAATTGCTTGAACAATTTTGACCTTTCAGAATACAGACAGATTCTCAGTGATGTGGCTATACGAATATATCATCAATTTATTATCATAATGGAAAAGAATATCCAACCGATAATAG
Seq A exon
GTAAGAAGAGAATGGATGACCAAAAAATATTTATAGTAACATTAAGACTTTTTAAAACATAAACTTGGTATGTGTAATGTGTGATTATGTGTAACATTGTTTAAAAAGCCAAGGAAATATAATCATGTAGATATCTGCCTTTTAATTCTTTGCTTGCTTATAATGATTCCATAAATAATAGTACGCTGTTGGTAGTTTTCTTTATATAAGGATGATTTATCCTGAAGGAAAAAACTTGGGGAAACTTCTACTACTGCTATTTATGTGGTACTTCTACTTCTTGGCGTAGCCAAGTATTTTTGAAATCCTAAAGCCCCATTCGAATTCTTGTATACTTTCCTTAATTTCCTGAAATTTAAATACTTTAGGCTTTAATGCCCAGGCCATGATTTGTCATGCTAAGCAGCTTTCTTTCCTGTGAAGCTGAAAAACGTGCTGCTTCAAACCTACAAGAGGAGCTGCAGCCCCGCTGGAAACAGCCGTCCATCCCTAACCCTGACACACACCCTGGTGTCCCAAACCCTTGATTCTTTTGCTTTCTCTATCATAAGTACATCCACTGACTCTTGTAGAAAAATGTCCCATCTCCTGAAACAAACCGAAGAGCGTCGGGAACGTTCCGCGTGTGTCTCCTGGCGTGTCAGCACAGCCTCCCTGTCTCTCCGCAG
Seq C2 exon
TTCCGGGAATGCTGGAGTATGAGAGCCTGCAGGGCATTTCCGGCCTGAAGCCCACAGGCTTCCGGAAGCGCTCCTCTAGCATAGACGACACGGACGGCTACACCATGACCTCCGTCCTGCAACAGCTGAGCTACTTTTACACCACCATGTGCCAGAACGGCCTGGACCCCGAGCTTGTGAGGCAGGCGGTGAAGCAGCTCTTCTTCTTGATCGGGGCGGTCACGCTGAACAGCCTCTTCCTGCGCAAGGACATGTGCTCCTGCAGAAAAGGGATGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128833-MYO5C:NM_018728:37
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0184314=DIL=PU(31.1=34.7)
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:
ACAGATTCTCAGTGATGTGGCT
R:
TGCATCCCTTTTCTGCAGGAG
Band lengths:
357-1025
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)