HsaINT1026782 @ hg38
Intron Retention
Gene
ENSG00000112511 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr6:33414041-33414366:+
Coord C1 exon
chr6:33414041-33414109
Coord A exon
chr6:33414110-33414242
Coord C2 exon
chr6:33414243-33414366
Length
133 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TGAAAACTTTGTTTTTCCAGGGT
3' ss Score
8.03
Exon sequences
Seq C1 exon
GTTCTATGAATTTGAATGCTGTGTGTGTCGCGGGGGCCCTGAGAAAGTCCGGAGACTACAGCTTCGCTG
Seq A exon
GTGAGCTGGATTGGGCATGACCTCAGTGTAACTCCACACCACAGTATTTCACTCTATATGCCCCAACCTCCCACCTCAGGACTCCCCTGGCTCTTAAAATGCCTCTGTGGTCTTGAAAACTTTGTTTTTCCAG
Seq C2 exon
GGTGGATGTGGCCCATCTTGTCCTGTATCACCTCAGTGTTTGCTGTAAGAAGAAATACTTTGATTTTGATCGTGAGATCCTCCCCTTCACTTCTGAGAATTGGGACAGTTTGCTCCTGGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112511:ENST00000374512:8
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=PD(25.5=58.3)
A:
NA
C2:
NO
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:
TGAATTTGAATGCTGTGTGTGTCG
R:
TCCCCCAGGAGCAAACTGTC
Band lengths:
186-319
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains