MmuINT0118657 @ mm10
Intron Retention
Gene
ENSMUSG00000024193 | Phf1
Description
PHD finger protein 1 [Source:MGI Symbol;Acc:MGI:98647]
Coordinates
chr17:26936287-26936680:+
Coord C1 exon
chr17:26936287-26936391
Coord A exon
chr17:26936392-26936511
Coord C2 exon
chr17:26936512-26936680
Length
120 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
GATAAAGAGACCTCTTACAGCTT
3' ss Score
-2.59
Exon sequences
Seq C1 exon
TTTCATTTCAGGGAGGGAGATTAAAAAGCGAAAATGTCTTTTTGGTCTCCATGCTCGGACCCCTCCTCCTGTGGAGCTTCTCACTGGAGATGGAGCCCCCACCAG
Seq A exon
GTCACTGGTCCAGGGGGGATGGGGAGAATTCTCAAGGATCTGTTTGGAGGGTGCATATAAAGAAAATGGGGGTCTGGGGTGGCTGGGAGGGGGCTGGGGGGATAAAGAGACCTCTTACAG
Seq C2 exon
CTTCCCTTCAGGGCAGGGCCCTGGGGGAGGGGTCTCACGTCCCCTGGGGAAACGATGGAGGTCGGAGCCAGAACCCTTAAGGAGGAGGCAGAAGGGGAAAGTGGAGGAACTGGGGCCACCCACGGCAGCACACAGTCGGCATGGGTCCCGGGAGCAGAGGGCCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024193:ENSMUST00000073724:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=1.000
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:
CAGGGAGGGAGATTAAAAAGCGA
R:
GACCCATGCCGACTGTGTG
Band lengths:
244-364
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