MmuINT0118690 @ mm10
Intron Retention
Gene
ENSMUSG00000037791 | Phf12
Description
PHD finger protein 12 [Source:MGI Symbol;Acc:MGI:1924057]
Coordinates
chr11:78028227-78028981:+
Coord C1 exon
chr11:78028227-78028309
Coord A exon
chr11:78028310-78028842
Coord C2 exon
chr11:78028843-78028981
Length
533 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TTATCTCCCCTCCTCCTCAGAAT
3' ss Score
9.74
Exon sequences
Seq C1 exon
GAGCTGACATGGATGTGTGCCTTACAAACTATGGTCACTGTAACTACGTGTCCGGGAAACATGCCTGCATATTCTACGATGAG
Seq A exon
GTGAGGGGCAGAGATGGGTGGGAGGGAGCTTTCCTAGCCTGAGGTCCTTCCCCAGCACTGGGTTCTGGACACAGGCAGAGGCAAGGATGAAAGGCTTGTCCTTTTTCTTCCTGTCCATCTTGGAAGGAAAGACTCAGTGTGAAGGGCTTGGCATTCCACCATGGCAACCTGTTTGTAGGAGCAGGCAATCGCTGCAACTAATGTTGCCCTCAGAAACAATTGAGGGAAGCCACCTCAAAATGGGAAGGGATCAAAATAGAAGGAAGCCAAGCTCTGTGTGTCCCTGAGTTTCATCATAATTATGTGCCAGTGAATTTCAGATCAACAGGAGCCAGTGCTGAGGAGCAGGGTGAGGGAGGAGATGTGGAGTCAATGGGGCAGGCTTTCACATGGGTGAGTCTTGGTGAATTCTGAAAGAGGCAGGCTGTGACTGAGGAAGAGCATGAGATCTTGCTAGGTAGAGCAGCAAGCCCTATGTCCTCTCCCAAGGCTGCACACAGCAACTACACATCATTATCTCCCCTCCTCCTCAG
Seq C2 exon
AATACCAAACATTATGAGCTGTTAAACTACAGTGAGCATGGGACAACGGTGGACAATGTGCTGTATTCATGTGACTTCTCTGAGAAGACCCCGCCAACCCCCCCAAGCAGTATTGTTGCCAAAGTACAGAGTGTCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037791:ENSMUST00000049167:13
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=0.170
Domain overlap (PFAM):
C1:
PF0049821=FHA=FE(41.5=100)
A:
NA
C2:
PF0049821=FHA=PD(47.7=66.0)
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:
GAGCTGACATGGATGTGTGCC
R:
TGATGACACTCTGTACTTTGGCA
Band lengths:
222-755
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