HsaINT0123856 @ hg19
Intron Retention
Gene
ENSG00000225553 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:8919]
Coordinates
chr6:33382743-33383447:+
Coord C1 exon
chr6:33382743-33382921
Coord A exon
chr6:33382922-33383366
Coord C2 exon
chr6:33383367-33383447
Length
445 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TTTCCCCACTCCAACCCCAGCAG
3' ss Score
6.09
Exon sequences
Seq C1 exon
GGCAGGGCCCTGGGGGAGGGGTCTCACGTCCCCTGGGGAAGCGCCGGAGGCCGGAGCCAGAGCCCCTGAGGAGGAGGCAGAAGGGGAAAGTGGAGGAGCTGGGGCCACCCTCAGCAGTGCGCAATCAGCCCGAGCCCCAGGAGCAGAGGGAGCGGGCTCATCTGCAGAGGGCACTGCAG
Seq A exon
GTACTGGAGCAGGGGGAACCCGATGGAGCAAATGGTGGGGTGTGGGAAGGAGTCAAGGATTATCTCTCAGTCCTTTGCCCCCTCTTCTAGGCCTCAGTGTCTCCACCATCCCCCAGCCCTAACCAGAGTTACCAGGGCAGCAGCGGCTACAACTTCCGGCCCACAGATGCCCGCTGCCTGCCCAGGTCAGTGCTCCTCTGCCCCTCCCCCACAAAATATGCTCCCAATTATTCACATCTTCTGGACTTTATCACCCAGAATTCTTTTCCCTCTCCCCCTTGGCTACCCACTTCTTGGCCTAGACCGACTTCTAGAACTAGTGTCTGGTAGCCAGTATTCTGGGGAAGGGAGTCCCTTGGGGGTAGTGTTTGAGCTCTGCACTTCCCAGGGGGAGAAGGTCCTGTTCCCCTGCTTCAGGTCCTGACTTTCCCCACTCCAACCCCAG
Seq C2 exon
CAGCCCCATCCGGATGTTTGCTTCCTTCCACCCTTCTGCCAGCACCGCAGGGACCTCTGGGGACAGTGGACCCCCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000225553-PHF1:NM_002636:12
Average complexity
IR-C
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 Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGGGTCTCACGTCCC
R:
CTGTCTGGGGGTCCACTGTC
Band lengths:
246-691
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)