HsaALTA0006230-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000112511 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:8919]
Coordinates
chr6:33382502-33382858:+
Coord C1 exon
chr6:33382502-33382606
Coord A exon
chr6:33382732-33382742
Coord C2 exon
chr6:33382743-33382858
Length
11 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
GATAAGGAGGCCTCTTACAGCTT
3' ss Score
-3.87
Exon sequences
Seq C1 exon
TTTCATTTCAGGGAGAGAGATTAAGAAGAGGAAATGTTTGTTTGGTCTCCATGCTCGGATGCCTCCCCCTGTGGAGCCCCCTACTGGAGATGGAGCACTCACCAG
Seq A exon
CTTCCCTTCAG
Seq C2 exon
GGCAGGGCCCTGGGGGAGGGGTCTCACGTCCCCTGGGGAAGCGCCGGAGGCCGGAGCCAGAGCCCCTGAGGAGGAGGCAGAAGGGGAAAGTGGAGGAGCTGGGGCCACCCTCAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112511-16-24,16-23-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.354 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGATGGAGCACTCACCAG
R:
CTTCTGCCTCCTCCTCAGGG
Band lengths:
104-115
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)