HsaINT0180203 @ hg19
Intron Retention
Gene
ENSG00000136059 | VILL
Description
villin-like [Source:HGNC Symbol;Acc:30906]
Coordinates
chr3:38044659-38045890:+
Coord C1 exon
chr3:38044659-38044804
Coord A exon
chr3:38044805-38045745
Coord C2 exon
chr3:38045746-38045890
Length
941 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
TTGCTGTCCGTGCTGGCCAGGCT
3' ss Score
5.13
Exon sequences
Seq C1 exon
GGCTGTAATGGTGATCAGCGTGAGATGGCACGGGTGGTGGTCACTGTCATTTCCAGGAAGAATGAGGAAACGGTGCTGGAGGGTCAGGAGCCTCCCCACTTCTGGGAGGCCCTGGGAGGCCGGGCCCCCTACCCCAGCAACAAGAG
Seq A exon
GTAACAGGGTTGGGAGGAGAGTGTTCTTACCCAGAGGAGGAATTGAGGCCCAGAGAGGAGGGTGGGTGACTGGGATTCACACAGAGAGCTGGCAAGACGAGACTAGAACCAAGGACTCTCAGTTTCCCACTCACAGAGGCTCCCACAAGTACAGCCCACGCTTCGCTCCCAGGCCTGGGTAACTTGCGTCTCTCAGATGCTGGGGAGAGTGGGGGCAGTGGCGACCTCTGCTGGCAGCATCCCCTCCCTGCATTGTCCTGGTCCTGGGCCAGGGGACAAAGCACCCTTCCCCACCCTACAGTCCTCAGGGATCACGGTGCCCAGTGTGTGTGTATACAGTGTCATATGATGTGTGGGTATACAGTGTGTGTGGATGTGCAAGAACAGGTGTATTCAGGGTGTTGTGTGTGGTGTGTAAGTGGACAGGGTGTGTGTAGGAGGTAGGAGTGAGGCCTCAAGGGGAGGAGGGAGCTGAGTCCTGGTCGCTCTTGGTCTGCCTGTGGGGCTTGGTTTATGTGCTGCACTCCCCACAATTCTCCTGAGCTCAGTACTCCCGTCTCCTTCTCCCAGCCTGGCTTGCCTCCTTCCACTTTGGGCCGGAGACCTACTCTCTGCCAGGGGTGGGCTGAGGAGCTCCTCCCATCCCAGGGAGGGCGAGACTCCAGCTCAGGCCCTCCCCTACCCCTGCAGCCCTCTCCTAGGGAAATTCATGGGGCACCTTGCGTCACAGCTGGGTGGGGCGAGAGCTTTCTCCATGAGCAGAGAGGGACCCTGTACCCAGAGCAGAGCGGAGTGCTCGGGGAGAAACCACGGGGCTCAGAGGAGGGCCCAGGGCTCCCACTCCTGAGAAGTGGCTTCCCAGGCCCTGGGGTGGGGCACTTGTGCCATGGGCTGGGGTGCCCCTCTGGGTGGCTCACAGCCTTGCTGTCCGTGCTGGCCAG
Seq C2 exon
GCTCCCTGAGGAGGTCCCCAGCTTCCAGCCACGACTGTTTGAGTGCTCCAGCCACATGGGCTGCCTGGTCCTCGCAGAAGTGGGGTTCTTCAGCCAGGAGGACCTGGACAAGTATGACATCATGTTACTGGACACCTGGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136059-VILL:NM_015873:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.041
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PD(48.6=69.4)
A:
NA
C2:
PF0062617=Gelsolin=PU(34.2=53.1)
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:
GGCTGTAATGGTGATCAGCGT
R:
CTCCTGCCAGGTGTCCAGTAA
Band lengths:
291-1232
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)