HsaINT0123855 @ hg19
Intron Retention
Gene
ENSG00000225553 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:8919]
Coordinates
chr6:33382254-33382606:+
Coord C1 exon
chr6:33382254-33382321
Coord A exon
chr6:33382322-33382501
Coord C2 exon
chr6:33382502-33382606
Length
180 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CATTTCTCTTCTTGCCCCAGTTT
3' ss Score
7.73
Exon sequences
Seq C1 exon
CTTTCAGACACCCCCAAAGGAGAACGTTCTTCCAGGCTCCTCTCTGCTCTTAACAGCCACAAGGACCG
Seq A exon
GTGAGTTGGAGGGAAGAGGAGGCAAGGATGAGGCTCGGAAAGAGATGGAGAGTGGAAGCCTGGAAGGGGAGGGGCTTGCAACCCACCTGGAAGACTGTGACTGAAAAGGATTGAGGAATGGCGTAAGGAGGAACCGTTTTTTACAGCACTGACCCTATATCATTTCTCTTCTTGCCCCAG
Seq C2 exon
TTTCATTTCAGGGAGAGAGATTAAGAAGAGGAAATGTTTGTTTGGTCTCCATGCTCGGATGCCTCCCCCTGTGGAGCCCCCTACTGGAGATGGAGCACTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000225553-PHF1:NM_002636:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGACACCCCCAAAGGAGAA
R:
CTGGTGAGTGCTCCATCTCCA
Band lengths:
170-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)