MmuINT0118659 @ mm9
Intron Retention
Gene
ENSMUSG00000024193 | Phf1
Description
PHD finger protein 1 [Source:MGI Symbol;Acc:MGI:98647]
Coordinates
chr17:27073716-27074079:+
Coord C1 exon
chr17:27073716-27073810
Coord A exon
chr17:27073811-27073998
Coord C2 exon
chr17:27073999-27074079
Length
188 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGCCTGTCCCCAACCTCAGCAG
3' ss Score
5
Exon sequences
Seq C1 exon
GCCTCGGTGTCTCCACCACCCCCCAGCCCTAACCAGAGCTATGAGGGCAGCAGCGGCTACAACTTCCGGCCCACAGACGCCCGCTGTCTGCCCAG
Seq A exon
GTGAGTGCCTGGTCCAGATGTGCCCCAGTCATTCCAGACTCTGTCACCTGCAACTCTTTTCCCTTTCCACCTTCACTTGTGGATTGTTGTCCCAAAGAGCTGTGCAGAGGCAGCCTCTACCCAGCTTTGAGTATGTGAGCGCTACCCTTCCCTGCTTGAGGTGCTGACTTGCCTGTCCCCAACCTCAG
Seq C2 exon
CAGCCCTATCCGGATGTTCGCCTCCTTCCACCCTTCTGCCAGCACTGCAGGGACCTCTGGGGACAGTGAACCCCCAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024193-Phf1:NM_009343:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.964
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGCCCTAACCAGAGCTAT
R:
TATCTGGGGGTTCACTGTCCC
Band lengths:
154-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: