MmuINT0118764 @ mm9
Intron Retention
Gene
ENSMUSG00000026873 | Phf19
Description
PHD finger protein 19 [Source:MGI Symbol;Acc:MGI:1921266]
Coordinates
chr2:34759575-34761118:-
Coord C1 exon
chr2:34760970-34761118
Coord A exon
chr2:34759671-34760969
Coord C2 exon
chr2:34759575-34759670
Length
1299 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGG
5' ss Score
5.42
3' ss Seq
TAGCTCTTCTGTGCCTCCAGGTG
3' ss Score
8.77
Exon sequences
Seq C1 exon
AAAGGTGGCGCTTTGAAGAAAGGCGCCATCGCCAAGACGCTGCAGGCAGTGAAAATGGTGCTGTCCTACCAGCCGGAGGAACTCGATTGGGACTCGCCCCATCGCACTAACCAGCAGCAATGCTACTGCTACTGCGGCGGGCCTGGAGA
Seq A exon
GTAAGGCTACAGAGCGGGGCACGTGGGACTGCAGGGTGGGACTGACAGGCTCCGGGAGAACCTCAACTCAGGGGGCGGAGCCTGAGTGACAGCCTGAGGGGCGGGGCGGGCTTGAGTAACTGGCTCTGGAGGCGGAACCTGGAGGGGCGCACTCCAAGTGACAGCTTAGAGGCGGGGCCTGAGCGTCAGACTCTGGAGGGGTTAACTTGGAGTGACAGCTGGGCTGTGGGGTGTGAGCGTCTGGAGGCGGGATCTGGAGGGGCGGACCTGGAGCCATGGGGCGGGGCCTTAGTGTCACGCTGTAGAGGCGGGACCTAGAGAAATTTGACAGCTCAGGGGCGGGGTCCGAGTGTCAGACTGTGAAGGCGGGATCTAGAGAGGTGGACCCAGAGTGACAGCTGCGAGGCGGGGCTTTAGTGTCAGGCCTTGGAGGCGTGTCTTGGATGGGCAAATCCAGAGTGCCAGCTGAGTATTAGGTCTAGGGAGGACGGGCCTGAAAGTGACAGTCGGAAGGGTGGAGCCTAGGTGTCAGGCCATGGAGGCGGTATCTGGAGGGGCGGATCCGCGATGTCATTTTAGGGAGGGCAGATTTTAATGTTGAGGCTGTGTCACTTTGCAGGAGGCTTCAGGAGGGAGACCCAGAGTGGTCTGTGAGGGCCAAGCTTTAGAGGCGGGCCCAGGGGGTAGAATAGCTGCCATAAAGCAGGTCTGGTCCCAGGGGAGCCAGGAGAGTTACCTAGGAGTCTTAAGAGAAGGGCCCTGAAAGTAGGCTCAGAGAGAACATGTACAGATAGCAATGGAGAGTAGAAGACGGAGTGCTTTTCTTGGAGTCGCCTGAGAAAGGTGGAAGTAATGAGACAGCTAAGAGCCTAGACTTGACAAATGTCCATTACCTGGCACAGAACTTTGCCAGCTGTGCCTTCCTGGATTCACAGTTCACTTACTAGTGTTTCTTTGTGTGGTTGTGAGCATCGGGAACTATATAAAAGCTCACATGGGCTGGGAATTGATAATCAGCCACTGGTGGTGGAGGAGATTCTTGTCTTGCTGAGGGGCCAGAATCTGGTCTAGCTTGCCAACCTGGGCCTCTAAGGACAGTGAAACCTGCTCCTTTGGGCTGTCTGCACAGAGGCAGGATATCTACCCTCAGTAGATGGCAGACTGCTCCTCCCCCGGTCCTGAGTTTTAGAGTGTCTGGAAGCTATGTTTATGGCCCAGCTAGCCTCTGACTTTGCCATTTGAACTACTTCATCTGTCAAATGGGCTGTGATGGCTGACCTAGCTCTTCTGTGCCTCCAG
Seq C2 exon
GTGGTACCTTCGGATGCTACAGTGCTACCGGTGTAGGCAGTGGTTCCATGAGGCTTGCACACAGTGCCTTAGTGAGCCTATGGTGTTTGGAGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026873-Phf19:NM_028716:6
Average complexity
IR-S
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:
PF0062824=PHD=PU(15.1=16.0)
A:
NA
C2:
PF0062824=PHD=FE(60.4=100)
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:
AGGTGGCGCTTTGAAGAAAGG
R:
CGGTCTCCAAACACCATAGGC
Band lengths:
243-1542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: