MmuINT0118760 @ mm10
Intron Retention
Gene
ENSMUSG00000026873 | Phf19
Description
PHD finger protein 19 [Source:MGI Symbol;Acc:MGI:1921266]
Coordinates
chr2:34911164-34911802:-
Coord C1 exon
chr2:34911617-34911802
Coord A exon
chr2:34911246-34911616
Coord C2 exon
chr2:34911164-34911245
Length
371 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTCTCCTCTCTTTGCCTCAGGTC
3' ss Score
11.44
Exon sequences
Seq C1 exon
AAGCTAATGGAGACTCAAGCTCTGGAACCAGGGACTCTGGAAGCCTTTGGTGCCACCAGTCCTAACAAGGGGGGCCTGTCTAAGACCAAAAAGAACTTCAAAGACTTGATGTCTAAGGTGACAGAGGGACAGTTCGTGCTATGCAGGTGGACAGACGGGCTATATTACCTTGGCAAGATCAAGCGG
Seq A exon
GTGAGTCTGCTCTGGTCCTTGGGCCCAGGTTCATGTGTCTTTCTGCTCATCCCTTTTTATCCCTCATGCCTGGAAACTGGAAGTGGAAGGGAACAGAGCTGTCCTCAGGGGCAATGTGGCCCAGCAGGTTCTTCAGAGAACTTAAGCAAGCATCAGACTGGACAGGGTACAGAAGACTCTCTGGCCTGCTCTTCTGTCCTTAAAAGCAGCCCCATTAAGTGGTGCCCCTGTTCCTGGTGGTCATACTTCGAAGTGGGGAGCATATCTCTCCTTCTGAAGCACACGGCCAGGAGATGGAGGAAGACTGAGACCCAGCTCCTCTCTGCTGCTCCTCCCTGCTGCTCCTCCATGCTCTCCTCTCTTTGCCTCAG
Seq C2 exon
GTCAGCAGTCCTAAGCAAAGCTGCCTTGTGACTTTTGAAGATAATTCCAAATACTGGGTCCTGTGGAAGGACATCCAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026873:ENSMUST00000028232:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=PU(40.4=31.7)
A:
NA
C2:
PF150571=DUF4537=PD(55.3=92.9)
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:
ATGGAGACTCAAGCTCTGGAAC
R:
CATGCTGGATGTCCTTCCACA
Band lengths:
262-633
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