MmuINT0121641 @ mm9
Intron Retention
Gene
ENSMUSG00000064247 | Plcxd1
Description
phosphatidylinositol-specific phospholipase C, X domain containing 1 [Source:MGI Symbol;Acc:MGI:2685422]
Coordinates
chr5:110531195-110531648:+
Coord C1 exon
chr5:110531195-110531350
Coord A exon
chr5:110531351-110531464
Coord C2 exon
chr5:110531465-110531648
Length
114 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGG
5' ss Score
5.5
3' ss Seq
CCATGCCCCTCCCCACCCAGGAA
3' ss Score
8.58
Exon sequences
Seq C1 exon
GACACCCTCACTGAGATAGCTGAGTGGCTGCAATCACACCCCCGCGAGGTGGTCATCTTGGCTTGCAGGAACTTCGAGGGGATGACTTGTGAGTTGCACGACTATCTCGCGGGCTGCATCGTGAACATTTTTGGAGACATGCTGTGTCCCAGTGGG
Seq A exon
GTGAGGAAGCATGGTCTCTATCGCATGGGGTGAGGAGGGTCAGGGATGAGTGTGTTCTTGTCTGGCAAGGTGAAGTGGGGAGTAACCCTCACCCCCATGCCCCTCCCCACCCAG
Seq C2 exon
GAAGTCCCCACACTGAGGCAGCTATGGGCACGAGAGCAGCAGGTCATCGTGTCCTACGAGGATGAGGCCACAGTCAGCCGTTATGATCAGCTGTGGCCTGCGATCCCATATTGGTGGGGAAATGCAGTGAAGACAGATGTGCTGCTGCGGTTCCTGGAGACCATGAAGGGCCAAGGCCGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064247-Plcxd1:NM_207279:6
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:
PF0038814=PI-PLC-X=FE(29.5=100)
A:
NA
C2:
PF0038814=PI-PLC-X=PD(11.6=32.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCATCTTGGCTTGCAGGAA
R:
GCAGCAGCACATCTGTCTTCA
Band lengths:
254-368
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: