MmuINT0118762 @ mm10
Intron Retention
Gene
ENSMUSG00000026873 | Phf19
Description
PHD finger protein 19 [Source:MGI Symbol;Acc:MGI:1921266]
Coordinates
chr2:34906458-34907100:-
Coord C1 exon
chr2:34907005-34907100
Coord A exon
chr2:34906559-34907004
Coord C2 exon
chr2:34906458-34906558
Length
446 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
AATCCCCACCTTCACCCCAGGTT
3' ss Score
7.51
Exon sequences
Seq C1 exon
CTGGTGTTCCGGGAGAGGAGCCCAAGTGTGACGTCTGCATGGGGAAGACTTCAGGGCCTATGAACGAGATCCTCATCTGTGGGAAGTGTGGCCTGG
Seq A exon
GTGAGTGGGTGAACAGCTCACTGTGAAGGCACTGCCCTGCGGGCCCCTCCCACTTTGTGGTCCCTCCCACTTTGTGGCCCCTCCCACATCGCACTTGCTGTGGTCCCAGCTAGCTTCCTATTTCTCCTATCCTGGGTTCCTCCTGCCTTGGGGAAAGGTGACCAAAAGCAATGGGAAATGTAGTTTGTGGCCCTCCTAGGCAGAGGAAGGCAGGTGCTGAAGCCAGCCCTTGGTGCCTCTTGCAGTGGCCAGTACTGTCTTTTTGTGCCTTACTGGTTATCAGCTTGGCTTCTGGGTGGGTACCACCAGCCAGTACCCTGAAAGCTGGCAGGCAGAGCTCCCTAGGGCTTGCCATAGCTCAGCTAGTCTCGCTGCCTATGGCCAACTGACCTTGGGCCACTGTTCCCTTGTGAGTGAGTGATTCGCAATCCCCACCTTCACCCCAG
Seq C2 exon
GTTACCACCAACAGTGCCACATCCCCATCGCAGTTGATGCCAACTGGCCCCTCCTCACTCATTGGTTCTGCCGACGCTGCATTTTCGCACTGGCTGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026873:ENSMUST00000028232:4
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:
PF144461=Prok-RING_1=PU(71.8=84.8),PF0062824=PHD=PU(44.4=72.7)
A:
NA
C2:
PF144461=Prok-RING_1=PD(25.6=29.4),PF0062824=PHD=PD(53.7=85.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTGTTCCGGGAGAGGAG
R:
CACAGCCAGTGCGAAAATGC
Band lengths:
194-640
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