MmuINT0118656 @ mm10
Intron Retention
Gene
ENSMUSG00000024193 | Phf1
Description
PHD finger protein 1 [Source:MGI Symbol;Acc:MGI:98647]
Coordinates
chr17:26936124-26936391:+
Coord C1 exon
chr17:26936124-26936191
Coord A exon
chr17:26936192-26936286
Coord C2 exon
chr17:26936287-26936391
Length
95 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CGACATTCCCCTTGTCCCAGTTT
3' ss Score
4.57
Exon sequences
Seq C1 exon
CTCTCAGATACTCCCAAGGGAGAGCGCTCTTCCCAGCTCCTTTCTGCTCTTAACAGCCACAAGGACCG
Seq A exon
GTGAGTCAAAAGAGGGAGGCTCAGGGGTGAGGTGCTAGTCTGGATGAGGAGAACTTTGCTACAGCACGGACCTGCCGACATTCCCCTTGTCCCAG
Seq C2 exon
TTTCATTTCAGGGAGGGAGATTAAAAAGCGAAAATGTCTTTTTGGTCTCCATGCTCGGACCCCTCCTCCTGTGGAGCTTCTCACTGGAGATGGAGCCCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024193:ENSMUST00000073724:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.174 A=NA C2=0.361
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCAGATACTCCCAAGGGA
R:
GGGGCTCCATCTCCAGTGAG
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