MmuINT0118689 @ mm10
Intron Retention
Gene
ENSMUSG00000037791 | Phf12
Description
PHD finger protein 12 [Source:MGI Symbol;Acc:MGI:1924057]
Coordinates
chr11:78027320-78028309:+
Coord C1 exon
chr11:78027320-78027418
Coord A exon
chr11:78027419-78028226
Coord C2 exon
chr11:78028227-78028309
Length
808 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACTCCTGCCACCTTGCAGGAG
3' ss Score
8.6
Exon sequences
Seq C1 exon
TGCAAAGAAAGGAGGTACAGGCCCGAGCTGTGTTCTGCCCCCTCTTAGGGTTGGGAGGAGCTGTGAACATGTGCTATCGAACCCTCTACATCGGGACAG
Seq A exon
GTGAGCCAGCCAGGAGTCTGGGAGGGGTACTGGACCTTCAGCCTAAAGGTGGACACTTAGAGAAACCCTTTTGAGGTTGATAGATCTAACAACACCCCACTGGGGTGTCCAGGCAAGAGAGACTGAGAACCCAGACAATCCAATGGGGTACTTCCTTGGCTCAGGCCTTTTGCTTTAACTGCCTCTCAGTAGCTTCTGAAACACTGTAAGGAAAGACTTAAAAAGAGAACACTTCTTTATTCTCAGGTGTGATAAGCTCACACATAACCTTCCTTTATTTGTTAGTTTATTTTTGGTCATCAAGATGATTTAAGATAGGATCTCCTCTGTAGTTCAGGGTGGCCTTGAACTCCAGTCTGTTCTCTTGCCTCAACCTCTCAGGTACTACATCTATGAGTATTGCCCACCACACCTCTGATCACCCCTAGAAATTGCCCTTTAAAGTGCCCTACACTATTGTGTTCACATGGATATACCATCCTCTTCAGTAGCTTACTGTCTGTCTGGGTGGCAGCCATGTATTCTAATGCAGATTAGCTTTAGAACAACAAAAGGAATTGCTGAACTTGCCAACATATATCTATAATCTCAGTACTTCAGTACTTACGGAATGGAGGCAGGGAGATCAAGAGTTCAAAGCTATACCCCATTACTATAAAGGGGAAAAAAAAGAGAAAAAAAAAAAAGAGGCCTTGAGCTACCTTGAAGTTTCTACTAGCACCCACCCACTCCCCTCTCTTTCACCTCCCCAACACATACACCTTACAGTCTGTTCTCTACCTTTTCCTTGACTCCTGCCACCTTGCAG
Seq C2 exon
GAGCTGACATGGATGTGTGCCTTACAAACTATGGTCACTGTAACTACGTGTCCGGGAAACATGCCTGCATATTCTACGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037791:ENSMUST00000049167:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0049821=FHA=PU(7.7=14.7)
A:
NA
C2:
PF0049821=FHA=FE(41.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAAGAAAGGAGGTACAGGC
R:
CTCATCGTAGAATATGCAGGCA
Band lengths:
182-990
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