HsaINT0180181 @ hg19
Intron Retention
Gene
ENSG00000127831 | VIL1
Description
villin 1 [Source:HGNC Symbol;Acc:12690]
Coordinates
chr2:219296580-219296906:+
Coord C1 exon
chr2:219296580-219296680
Coord A exon
chr2:219296681-219296768
Coord C2 exon
chr2:219296769-219296906
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TGGCCTGATACTGGCCCTAGGTG
3' ss Score
6.19
Exon sequences
Seq C1 exon
CCAAAGTGGAACAGGTGAAGTTCGATGCCACATCCATGCATGTCAAGCCTCAGGTGGCTGCCCAGCAGAAGATGGTAGATGATGGGAGTGGGGAAGTGCAG
Seq A exon
GTATGTGAGGGCAGAGAGGCCCGTGCTGGGTGGAGCAGGAATGGTGGAGCCTGTCCTGGACCTCACCCTGGCCTGATACTGGCCCTAG
Seq C2 exon
GTGTGGCGCATTGAGAACCTAGAGCTGGTACCTGTGGATTCCAAGTGGCTAGGCCACTTCTATGGGGGCGACTGCTACCTGCTGCTCTACACCTACCTCATCGGCGAGAAGCAGCATTACCTGCTCTACGTTTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127831-VIL1:NM_007127:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062617=Gelsolin=PU(48.2=87.0)
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:
ATGCATGTCAAGCCTCAGGTG
R:
CGCCGATGAGGTAGGTGTAGA
Band lengths:
172-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)