HsaINT1026773 @ hg38
Intron Retention
Gene
ENSG00000112511 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr6:33414725-33415144:+
Coord C1 exon
chr6:33414725-33414829
Coord A exon
chr6:33414830-33414965
Coord C2 exon
chr6:33414966-33415144
Length
136 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
CTCTTACAGCTTCCCTTCAGGGC
3' ss Score
5.73
Exon sequences
Seq C1 exon
TTTCATTTCAGGGAGAGAGATTAAGAAGAGGAAATGTTTGTTTGGTCTCCATGCTCGGATGCCTCCCCCTGTGGAGCCCCCTACTGGAGATGGAGCACTCACCAG
Seq A exon
GTCACTGGTCCAGGGGGGATGGGGGAAATTCTCAGGGTGTTAGTCCTGGGGGGTATATGTATAGAGATGGGGAGGTCTTGGGGGTGTCCGGGAGGGGGCTGGGGGGATAAGGAGGCCTCTTACAGCTTCCCTTCAG
Seq C2 exon
GGCAGGGCCCTGGGGGAGGGGTCTCACGTCCCCTGGGGAAGCGCCGGAGGCCGGAGCCAGAGCCCCTGAGGAGGAGGCAGAAGGGGAAAGTGGAGGAGCTGGGGCCACCCTCAGCAGTGCGCAATCAGCCCGAGCCCCAGGAGCAGAGGGAGCGGGCTCATCTGCAGAGGGCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112511:ENST00000374512:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTGTTTGGTCTCCATGCTCG
R:
GCCCTCTGCAGATGAGCCC
Band lengths:
242-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains