MmuINT0118756 @ mm10
Intron Retention
Gene
ENSMUSG00000026873 | Phf19
Description
PHD finger protein 19 [Source:MGI Symbol;Acc:MGI:1921266]
Coordinates
chr2:34898924-34899744:-
Coord C1 exon
chr2:34899583-34899744
Coord A exon
chr2:34899012-34899582
Coord C2 exon
chr2:34898924-34899011
Length
571 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TCCCTTTTCTGTCTCCACAGTTT
3' ss Score
11.68
Exon sequences
Seq C1 exon
GTTCCTGTGTGGCAAGGAAATTAAGAAGAAGAAATGCATCTTCCGACTGCGCATCCGAGTCCCGCCTGCCCCTCCAGGAAAACTGCTTCCCGACAGGGCGTTGATGCCAAGTGACAAAGGGACCTCCGAGCTGCTTCGTAAGAAAGGAAAGAGCAAGCCTGG
Seq A exon
GTCAGTGCTGGTGGAGGGCCACCATGGCTGCAGCCAGCTTGGGTTCTCTGTCTAAGCTCCCACCTTTTGCAGATAGTAGAGAGCTCTGCAATGGGCCCAGGCAGTGTGGCAGCACCCCTGTAAACCTGGAGTCCTAGACACAGCAGGGTCCAGCTATAGGCACTCTGGGAGAGCTAGTGAGACGCTCCTAGGTCCCTCTCAACACAGTCCCCTCACTTCCTAGCTCCAGGGAAGCCTGATCCTGGGACCCAGCCCTGCCGCACTAGGACTGGGCAGTGAAAGGACACAGAAATGTGTGGCATGCCCCTGTTCTCCCTGCTGGGCAGAGCCTCCTCTCTAGGGGCGCTGGGGCAAGGAGGCACCTCTCCTTTTTCTCCTCTCTAAAGCCCCTCCACATTCACTGCCCCAGAGGTTGGCCTCCTCCCAGGCTCTGTCTACCCTGCCCAAACCCTCCTGATCCCATACTGGCCACTGCCCCCCAGCACTCCTGAGGCCTCTCCCACTGAGCCTCTCTCTGCCTGGCCCTCCCCGGCTCTGACTGGGCCACCCTCTCCCTTTTCTGTCTCCACAG
Seq C2 exon
TTTGTTGCCTCAGGAACCCCAGCAGCAGAAAAGGCGAGTTTATAGAAGAAAAAGATCAAAGTTTTTGCTGGAAGATGCTATTCCCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026873:ENSMUST00000028232:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.567
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:
GTTCCTGTGTGGCAAGGAAAT
R:
CTGGGAATAGCATCTTCCAGCA
Band lengths:
249-820
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