HsaINT0180206 @ hg19
Intron Retention
Gene
ENSG00000136059 | VILL
Description
villin-like [Source:HGNC Symbol;Acc:30906]
Coordinates
chr3:38047672-38048191:+
Coord C1 exon
chr3:38047672-38047743
Coord A exon
chr3:38047744-38047939
Coord C2 exon
chr3:38047940-38048191
Length
196 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TGAGGCTCCTCTCTGGACAGGAA
3' ss Score
7.62
Exon sequences
Seq C1 exon
AGCCACCCGTCCCACAAGGAAGTGGTGGATGGCAGCCCGGCAGCAGCATCAACCATCTCTGAGATAACAGCA
Seq A exon
GTGAGTCCTGGGGCCCCTAGCCTTCCCCACAGTGGCCTGGGCTCCGACAGCATGGTCCTGATGGGCAGGGGAAGTGCCAGGCCCTTGTAAGTGGGAGGGGCTGCAGTTGGAGGTAAGAGGCCTGTGGGTTCAGTGCAGCCTCCCTGTGGGCTACTGATTCCCCATCTTCCCCAGCCTGAGGCTCCTCTCTGGACAG
Seq C2 exon
GAAGTCAACAACTTGCGGCTATCCAGATGGCCGGGCAATGGCAGGGCAGGTGCCGTGGCCCTGCAGGCCCTCAAGGGCTCCCAGGACAGCTCAGAGAATGATCTGGTGCGAAGCCCCAAGTCGGCTGGCAGCAGAACCAGCAGCTCCGTCAGCAGCACCAGCGCCACGATCAACGGGGGCCTGCGCCGGGAACAACTGATGCACCAGGCTGTTGAGGACCTGCCAGAGGGCGTGGACCCTGCCCGCAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136059-VILL:NM_015873:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.643
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCAGCATCAACCATCTCT
R:
AGCCTGGTGCATCAGTTGTTC
Band lengths:
243-439
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)