HsaINT0180207 @ hg19
Intron Retention
Gene
ENSG00000136059 | VILL
Description
villin-like [Source:HGNC Symbol;Acc:30906]
Coordinates
chr3:38047940-38048676:+
Coord C1 exon
chr3:38047940-38048191
Coord A exon
chr3:38048192-38048432
Coord C2 exon
chr3:38048433-38048676
Length
241 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
CCCCTCTCTCCCCTGCCCAGTTC
3' ss Score
8.84
Exon sequences
Seq C1 exon
GAAGTCAACAACTTGCGGCTATCCAGATGGCCGGGCAATGGCAGGGCAGGTGCCGTGGCCCTGCAGGCCCTCAAGGGCTCCCAGGACAGCTCAGAGAATGATCTGGTGCGAAGCCCCAAGTCGGCTGGCAGCAGAACCAGCAGCTCCGTCAGCAGCACCAGCGCCACGATCAACGGGGGCCTGCGCCGGGAACAACTGATGCACCAGGCTGTTGAGGACCTGCCAGAGGGCGTGGACCCTGCCCGCAGGGAG
Seq A exon
GTGGGCACCCCCTCACTGCCCCAGCACTAGTGCATCTGACACTGAGCTGGAGGAGCCCAAGGCAGGATCCACTGGTGGCGGGCAGTGGGCAACTGCCCCGGGAGATGTGTCTTCTAGCTGGGGTGGTGGGCAAACAGATGCGGGAGTCCCAAGCCCTGGATGACTGACACTACTGAGTGGGGCAGGATTCTGGGCTCAGATGACACCCTACCCTGTACCTCCCCCTCTCTCCCCTGCCCAG
Seq C2 exon
TTCTATCTCTCAGACTCTGACTTCCAAGATATCTTTGGGAAATCCAAGGAGGAATTCTACAGCATGGCCACGTGGAGGCAGCGGCAGGAGAAAAAGCAGCTGGGCTTCTTCTGAACCCAAGCCCTCTCGACTGCCCCTATCCCCTGGACCCCAACATACCTACAATGCTGGGGAGGCCCTGCTTCCACTCCCCTCAGAGGCTTTTGGTCATCCTCTGCGTGTCAGTAAAAGCAGGCAGCCCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136059-VILL:NM_015873:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.643 A=NA C2=0.027
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220914=VHP=WD(100=94.7)
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:
GAACAACTGATGCACCAGGCT
R:
GGCTGCCTGCTTTTACTGACA
Band lengths:
303-544
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)