HsaINT0180204 @ hg19
Intron Retention
Gene
ENSG00000136059 | VILL
Description
villin-like [Source:HGNC Symbol;Acc:30906]
Coordinates
chr3:38045746-38047465:+
Coord C1 exon
chr3:38045746-38045890
Coord A exon
chr3:38045891-38047282
Coord C2 exon
chr3:38047283-38047465
Length
1392 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
AGGTCCCCTCTGTGGCTCAGATC
3' ss Score
3.85
Exon sequences
Seq C1 exon
GCTCCCTGAGGAGGTCCCCAGCTTCCAGCCACGACTGTTTGAGTGCTCCAGCCACATGGGCTGCCTGGTCCTCGCAGAAGTGGGGTTCTTCAGCCAGGAGGACCTGGACAAGTATGACATCATGTTACTGGACACCTGGCAGGAG
Seq A exon
GTAAGGTGGCCATCCCTGCCTGGTGGGGCTGTGAACGGGGGTGTGTTTCTGTTTGTGTAACTGGGTGTGTGTGTATCTAGCCATCTGCCTCTGTACACAGGGCTGTGGGTGAGTCTGACCCTGTCACTGAGCAATTGCATTGCGGTGCATATGAGACCATGGATGAGTGTGCATCACCAGGTGGCAGCAGTGAGACTCCGGGAGATTAGGAGTGTGTTGGAACTCAGGGGTAACTGAGACCATGTTTGCAGTTGTGTGTGGCCCTGTGTGCCTTATGATACTATGTGTGGCTCCAGCGACAGTGCCTGCGGCCGAGCATGTGTCGGTGCTGCATGAGTGACTGTGATTGGAATGCCCAATCGCATCATTCATGTGTGTGGCTTGGTGTGAGTGTTTGCCTTCGTGCACCTGTGTGTGACACTTTGTCAGTGACTGTGAGGTCACGTGATGCTAGAACTGGCCAGACCAGTGGCAACTGGTGAAAATGTGTCTGTGAGCAAGACTATGACTGGCTGTGGGCGAATGATGGATGGGTGTGTTTGTGGGTCTGTGTTTCTGCGCACAGTGGTATAACTGGCCGGGTGTGCGTGGCTGTGTAAACAAGTGCTGTTGTGTTTGCATGCAGCTCTGTGTCTGACAACAGTGGATGACAGTGTGTGGCTATGGTTTGCTGTCTGGCTGTGTGGCGATGGATGACTGTGTGTCTGTGTAAGCTGCAATAATGTGTGTTCTCTGCATCTCTGTGGGGCCGTGTCTACAGCACTGTTTGAATTGGTGATGAAGCTGTGTGCTCCCATCTACTCAGAACAAACCCAGAGCTCTTACCACAGCCCTACGTGACCTGGCCAGCCCCAACTCTTTGACCCAATTTCCCCCTGCTCCCCCCTCACTGCTTCTGCTGCAGCCACAATGGCCTCTTTGTGTTCCCTGAACATGCCGGGCACACGGCCACCTCGGGGCTTTTACACCGGTTGTTTCTTCTGGTTAGGACACTTTTCCTCCAGACATACATGTGACTTGCTCTCTCATGAAAGCTCTATAAGGGCAGGGATTTTTGTCCATTTTCTTTCATTGTTGACTCCCCAAAGCCTAGACCAATGCCCGGCACACAGTAGGTGCTCAATAAGTATTTGTGGATTGATCTCCAGGTAAATCATGCAAGAAAAAAAAAATGTGTGGATTGAACGTGTGTGTGCATGTATGCATGCATTCCTGTGACCTTCTCGTGTGTTCACGGGTGTGTGGGTACAGCCGCTTGCTGGGTGTGTCTGCTTGGCCAGGGATGTGTATGTGGGGTTCTGTCTGGGACAACTGGACAGGGAGTGGACAGGAAGGGGTCAGCTCTGGGCAGCCCCTCCACCTGCCCAAGGCCAGGTCCCCTCTGTGGCTCAG
Seq C2 exon
ATCTTCCTGTGGCTTGGGGAAGCTGCAAGTGAGTGGAAGGAGGCGGTGGCCTGGGGCCAGGAGTACCTGAAGACTCACCCAGCAGGGAGGAGCCCGGCCACACCCATCGTGCTGGTCAAGCAGGGCCATGAGCCTCCCACCTTCATTGGATGGTTCTTCACTTGGGACCCCTACAAGTGGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136059-VILL:NM_015873:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(34.2=53.1)
A:
NA
C2:
PF0062617=Gelsolin=PD(63.2=78.7)
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:
TCCCTGAGGAGGTCCCCAG
R:
AGTCCACTTGTAGGGGTCCCA
Band lengths:
326-1718
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)