HsaINT1026780 @ hg38
Intron Retention
Gene
ENSG00000112511 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr6:33413409-33413831:+
Coord C1 exon
chr6:33413409-33413557
Coord A exon
chr6:33413558-33413735
Coord C2 exon
chr6:33413736-33413831
Length
178 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
AGTCCTGTGTTCCCCCTCAGGTG
3' ss Score
10.25
Exon sequences
Seq C1 exon
AGGGGAGGTGCCCTGAAGAAGGGCCCCTATGCCCGGGCCATGCTGGGTATGAAGCTTTCTCTGCCATATGGACTGAAGGGGCTGGACTGGGATGCTGGACATCTGAGCAACCGACAGCAGAGTTACTGTTACTGTGGTGGCCCTGGGGA
Seq A exon
GTGAGTAATGAGAGGGGAGCAGACTGTGGAATGAATGATGTGGTGGTGGATCCCAGGAAATGAAGGAAAAAGAACAGGATGAGGGTAGCACTCAGGGGGATAGGAGGTAAGTTTAGGGTTTGGGACAGTTATGGGGAAGGGGGTTTCTGGAGGCCAGAAGTCCTGTGTTCCCCCTCAG
Seq C2 exon
GTGGAACCTGAAAATGCTGCAGTGCCGGAGCTGCCTGCAGTGGTTCCATGAGGCCTGCACCCAGTGTCTGAGCAAGCCCCTCCTCTATGGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112511:ENST00000374512:6
Average complexity
IR
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=PU(14.5=16.0)
A:
NA
C2:
PF0062824=PHD=PD(74.3=78.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGTGCCCTGAAGAAGG
R:
CTGTCCCCATAGAGGAGGG
Band lengths:
242-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains