HsaINT0015965 @ hg19
Intron Retention
Gene
ENSG00000135407 | AVIL
Description
advillin [Source:HGNC Symbol;Acc:14188]
Coordinates
chr12:58203380-58203673:-
Coord C1 exon
chr12:58203595-58203673
Coord A exon
chr12:58203479-58203594
Coord C2 exon
chr12:58203380-58203478
Length
116 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CCTATCTCTGGCTGCTTTAGGAC
3' ss Score
8.91
Exon sequences
Seq C1 exon
TATCTCAGATTCAGCTGGGCAGCTGGCAGTCACAGAGGTAGCAACAAGGCCTCTGGTCCAGGACTTACTGAACCATGAT
Seq A exon
GTAAGTAGAGTTTGGGTGGACTTAGCTTGGGGTAGCCAGACATGCTTCAGAAGCAGACCCTGTGCAAAATCTTCCTTCTGGTCTTGAGCAACCATACCTATCTCTGGCTGCTTTAG
Seq C2 exon
GACTGCTACATCCTGGACCAAAGTGGAACCAAAATCTACGTGTGGAAAGGAAAAGGAGCCACAAAGGCTGAAAAACAGGCAGCCATGTCTAAAGCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135407-AVIL:NM_006576:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(21.8=63.0)
A:
NA
C2:
PF0062617=Gelsolin=FE(41.0=100)
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:
TATCTCAGATTCAGCTGGGCAG
R:
CAGCGCTTTAGACATGGCTGC
Band lengths:
178-294
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
- Pre-implantation embryo development
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)