MmuINT0118662 @ mm10
Intron Retention
Gene
ENSMUSG00000024193 | Phf1
Description
PHD finger protein 1 [Source:MGI Symbol;Acc:MGI:98647]
Coordinates
chr17:26934454-26934726:+
Coord C1 exon
chr17:26934454-26934535
Coord A exon
chr17:26934536-26934630
Coord C2 exon
chr17:26934631-26934726
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GACACTTTGTTCCCTCACAGCTG
3' ss Score
9.4
Exon sequences
Seq C1 exon
GTGGACAGTGCTCGAGAGGTGTGTCTGGTCCAGTTTGAGGACGATTCCCAGTTTCTGGTTCTATGGAAGGATATCAGCCCAG
Seq A exon
GTGAGACCTTCAGACTGAAGCCTGTGACAGCAGAAGCTGGAGTGGGTGGGGACACTGGTTGTTGGTAGGCCTCCTGACACTTTGTTCCCTCACAG
Seq C2 exon
CTGCCCTCCCTGGGGAGGAGCTGCTCTGTTGTGTGTGTCGCTCTGAGACCGTGGTACCTGGGAACCGGCTGGTCAGCTGTGAGAAGTGTCGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024193:ENSMUST00000073724:3
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:
PF150571=DUF4537=FE(47.4=100)
A:
NA
C2:
PF150571=DUF4537=PD(15.8=27.3),PF0062824=PHD=PU(44.4=72.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCTCGAGAGGTGTGTCTG
R:
CGACACTTCTCACAGCTGACC
Band lengths:
167-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types