MmuINT0119254 @ mm10
Intron Retention
Gene
ENSMUSG00000079484 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:MGI Symbol;Acc:MGI:3612860]
Coordinates
chr2:30274470-30274723:+
Coord C1 exon
chr2:30274470-30274545
Coord A exon
chr2:30274546-30274675
Coord C2 exon
chr2:30274676-30274723
Length
130 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGG
5' ss Score
5.28
3' ss Seq
GTTTGTTTTTTATACCACAGGAA
3' ss Score
8.52
Exon sequences
Seq C1 exon
GGCAAGACAGACTACTTCTTGAGCAGCGGTGACAAGATCCGATTCTTCTTTGAAAAAGGCGTTTTTGATGAGAAAG
Seq A exon
GTTTGGGGACATGAGGGTTAGTGGGCTGGGTCAGGGTGGCTAACTCCTGAGGCTGGGAGAAGCTGAGATCAGCTGCCTGATGGAAGCCGGATCCCAGGTCTTCTGCCTTTGTTTGTTTTTTATACCACAG
Seq C2 exon
GAAATTTCTTGGTCCCTCCTGAGAAATCTATCAACAAAATTGGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079484:ENSMUST00000154647:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(10.1=100)
A:
NA
C2:
PF057218=PhyH=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAAGACAGACTACTTCTTGAGC
R:
TGGCCAATTTTGTTGATAGATTTCT
Band lengths:
122-252
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