HsaINT0123955 @ hg19
Intron Retention
Gene
ENSG00000119403 | PHF19
Description
PHD finger protein 19 [Source:HGNC Symbol;Acc:24566]
Coordinates
chr9:123627988-123628374:-
Coord C1 exon
chr9:123628306-123628374
Coord A exon
chr9:123628109-123628305
Coord C2 exon
chr9:123627988-123628108
Length
197 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
CTCCTTGCCCCCTTGCCCAGGGT
3' ss Score
7.38
Exon sequences
Seq C1 exon
GTTTTACCTGTTCTTCTGCTCCGTGTGTAACCAGGGCCCAGAGTACATCGAGAGGCTGCCCCTGCGATG
Seq A exon
GTGAGAGGGTGGGGCTTAGTCCAACCACCGCTGCTCCTCCCAGCTTCTCCCCTCCCTCCTCCCTCCTGGAACAATTCCATTTCCAGCTACTGGGTCCCAACCCTGCCCCTGTCTCTCAGCCTGGACCCAGAAAGCTGTGACCCTGGCTGAGCAGGCTGCCACCTCACCTGGTCCCACCTCCTTGCCCCCTTGCCCAG
Seq C2 exon
GGTGGATGTGGTTCACCTGGCCCTCTATAATCTGGGGGTACAGAGCAAGAAGAAGTACTTTGACTTTGAGGAGATTCTGGCCTTTGTCAACCACCACTGGGAGCTCCTGCAGCTTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119403-PHF19:NM_015651:8
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:
PF0062824=PHD=PD(22.6=50.0)
A:
NA
C2:
NO
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:
TACCTGTTCTTCTGCTCCGTG
R:
CTTGCCAAGCTGCAGGAG
Band lengths:
186-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)