MmuINT0118667 @ mm10
Intron Retention
Gene
ENSMUSG00000024193 | Phf1
Description
PHD finger protein 1 [Source:MGI Symbol;Acc:MGI:98647]
Coordinates
chr17:26935750-26936042:+
Coord C1 exon
chr17:26935750-26935818
Coord A exon
chr17:26935819-26935918
Coord C2 exon
chr17:26935919-26936042
Length
100 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
ACAATTCCATGCTCCTCCAGGGT
3' ss Score
8.6
Exon sequences
Seq C1 exon
ATTCTATGAATTTGAGTGCTGTGTGTGCCGGGGCGGCCCTGAGAAGGTCCGGAGGTTACAGCTTCGCTG
Seq A exon
GTGAGATGGGTTGTGATTCATTTCTGTTGTCCACCATGTTACCCTAATGACCCCTGATTTTGATAGCGCCGATGCTGCTGACAATTCCATGCTCCTCCAG
Seq C2 exon
GGTGGATGTGGCCCATCTTGTCCTCTACCACCTCAGCGTTTGCTGTAAGAAGAAATATTTTGATTTTGACCGAGAGATCCTCCCCTTCACCTCTGAGAATTGGGACAGTCTGCTCCTGGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024193:ENSMUST00000073724:8
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATTTGAGTGCTGTGTGTGC
R:
TCCCCCAGGAGCAGACTGT
Band lengths:
186-286
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