HsaINT0180185 @ hg19
Intron Retention
Gene
ENSG00000127831 | VIL1
Description
villin 1 [Source:HGNC Symbol;Acc:12690]
Coordinates
chr2:219300012-219301349:+
Coord C1 exon
chr2:219300012-219300157
Coord A exon
chr2:219300158-219301204
Coord C2 exon
chr2:219301205-219301349
Length
1047 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
ATCTTCTCTCCATCCTGCAGACT
3' ss Score
10.39
Exon sequences
Seq C1 exon
GGTTGTAGCGGGGACGAGCGGGAGATGGCCAAGATGGTTGCTGACACCATCTCCCGGACGGAGAAGCAAGTGGTGGTGGAAGGGCAGGAGCCAGCCAACTTCTGGATGGCCCTGGGTGGGAAGGCCCCCTATGCCAACACCAAGAG
Seq A exon
GTAACTCTCAGGTCCCTCCGCCTCCAGGTTACCAAGGTGGGGGAGCCGCCCAGCATCTCCATCCCTACACCCAGAGCCTACAGCAGGCATGGACTGAGGACTCTGTGTGTCAGGCACTGTGCCAGACCCCCAGGGCTACAAGATGAATAAAGGGCAGCCCATACCCTTGGAGCCTCTTGGCACAGGGGCTGTGTCTGTGCTGCTCACTACAGTATGCCCAGGACCTGGTGGGGTATTTCCTTGGCAAAGGGAATTCCTGGCCATAGGAGGCAGCTCAAAGCAAGGGGCAGGGCTAGAGGTTTGCCTTTCAGTAACAAGATGCCAGAGGCCAGCCTGCTTTTAGGTCCTGACACAGGCCTGGGATGCTGAGGAGCCCCAGCCACAAGCCCTCTTTCAAATGGTTTTGTTTTGTTTTTGTGACAGAGTCTCGCTCTGTCAACTAGGCTGGAATGCAGTGGTGCAATCTCAGCTCACTGCAGCCTCTGCCTCCGCCTCCCAGGTTCCAGCAATTCTCCTGCTGCAGCCTCCTGCGTAGCTGAGATTACAGGCGCCCACCACCGTGCCCGGCTAATTTTTGTATTTTTAGTAAAGACAGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAATGCTAGGATTACAGGTGTGGGCCACGGTGACTGGCTCAAATGGTTTTTCTAGAGAATATCCATGATCTACTAGTCCCTAGTTCAAAAGCAAAAGGGCATGTACTGTAGTAGCAGTAGGAGGGATGGAGGGAAGATATCAGGAAGAACTTCCTAACAAGGCTCTGCAAAAGACACTGGAATGCATGTCCAGAAAGCAGTGACAATTTCTTCCTCAGAGCACTCTTGGAATGAGAGGGGACCCTTTTATCAATCAGAAGATAGAGCATTTTGCTGGAGATGACCTTTCTATGCCAGAGTCCCTTCCTCAGAGTTCTGTGTCCTCAATTCTCCTTTTGCCACACCTTCCTTCTGCCAGTACAATCTTCTCTCCATCCTGCAG
Seq C2 exon
ACTACAGGAAGAAAACCTGGTCATCACCCCCCGGCTCTTTGAGTGTTCCAACAAGACTGGGCGCTTCCTGGCCACAGAGATCCCTGACTTCAATCAGGATGACTTGGAAGAGGATGATGTGTTCCTACTAGATGTCTGGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127831-VIL1:NM_007127:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093475=DUF1989=PD(37.7=81.6),PF0062617=Gelsolin=PD(48.6=69.4)
A:
NA
C2:
PF0062617=Gelsolin=PU(34.2=55.1)
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:
GGGACGAGCGGGAGATGG
R:
TGGTCCCAGACATCTAGTAGGA
Band lengths:
280-1327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)