HsaINT0180208 @ hg19
Intron Retention
Gene
ENSG00000136059 | VILL
Description
villin-like [Source:HGNC Symbol;Acc:30906]
Coordinates
chr3:38035389-38035957:+
Coord C1 exon
chr3:38035389-38035463
Coord A exon
chr3:38035464-38035751
Coord C2 exon
chr3:38035752-38035957
Length
288 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CACAAACACCCGGACCCTAGGTC
3' ss Score
4.2
Exon sequences
Seq C1 exon
AACCGGAAGATGGTGCCGGTACCCGAGGGGGCTTACGGGAACTTTTTTGAGGAACACTGCTATGTCATCCTCCAC
Seq A exon
GTGAGTCGCTTGGGGAAGTCTGCCTGAGAGGGGTGGCATGGCCCGGCACTGGGGAGACTGAGGCACAGGCATAAACTCTGCCCTGGGAAGCGGCAAGTTGAGAGCCGGAGAATCACATCCCACAAGGGGGCGGTTACCGTTGAGGCTTCTTAGTCCTTCCCTCCCACTTCCTGATCTCCGCGGAAGCCCCTGCCTAGCGTCTCCCCATGGCCCTTGGTACATCCTCCCCTTCTCCACCCGCACCTCCGTCTTCCCCGCAACACATATACACAAACACCCGGACCCTAG
Seq C2 exon
GTCCCCCAGAGCCCGAAGGCCACGCAGGGGGCGTCCAGCGACCTGCACTACTGGGTCGGGAAGCAGGCGGGTGCGGAAGCGCAGGGCGCTGCGGAGGCCTTCCAGCAGCGCCTACAGGACGAGCTGGGGGGCCAGACCGTGCTGCACCGCGAGGCGCAGGGCCACGAGTCCGACTGCTTCTGCAGCTACTTCCGCCCGGGAATCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136059-VILL:NM_015873:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(27.9=96.0)
A:
NA
C2:
PF0062617=Gelsolin=PD(69.8=87.0)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCGGAAGATGGTGCCGG
R:
TCCCGGGCGGAAGTAGCT
Band lengths:
276-564
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
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)