MmuINT0118509 @ mm10
Intron Retention
Gene
ENSMUSG00000017715 | Pgs1
Description
phosphatidylglycerophosphate synthase 1 [Source:MGI Symbol;Acc:MGI:1921701]
Coordinates
chr11:118001616-118002540:+
Coord C1 exon
chr11:118001616-118001715
Coord A exon
chr11:118001716-118002350
Coord C2 exon
chr11:118002351-118002540
Length
635 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
TCCTCTGCCGTCACACTCAGGTA
3' ss Score
8.5
Exon sequences
Seq C1 exon
GTGGATTGTCTGGAAAGTTCTCTAGAAAAGTCACTCCAAGCGAAGTTTCCTTCCGACCTCAAGGTCTCCATTCTCCTGGACTTCACCAGAGGCTCAAGAG
Seq A exon
GTAGGCGCTCCGCACTTCCTCTCTCTCTACTCATTGGTTTGAGGACATCCTAGGACCAGGGCTGCCCAGGGCTGCCTGCTTGTCCCAGTCCTCATTCCTTCTGCAGCAGTCGCTTGTCTGGAGTCCAACTTGGAACAGTGTGGGCAGAAAAAGAGCTTTCCTGAGTCCGCGGCTACTCGGGGTCTGTCTCCTGGCCCAGCTTCCTTAGGCCTTGCTTTATTTTAAGGCTTTGTGTGGGGGGTCCCTAGTGCCTGAAGCCAAGTTCCAAGGTTACCTGTTTCTTGGAAGGCAGTTTGCCTCCCTCCCAGAGACTCAGGCCAGAGTGTCTAAATGACTGCTGTAGGCTGTGGGCTAGATCTAAGTCAGTTTGGCTCGTCTGATGGCACAGAGCGGGGGTAGCCCCCAGGAAGCAGTTGATAGAGTTGCCAGGAGTGGGGCAGCTAGCGTGCTTGAGCAGCTAGCACTCCTTCCTTAAGCGTGATTGGCTCCTCAGAAGCAGCACCTTGATGTGGCTGGTTAGACCATGTCCCAGGTAAAGTGAGGCTCCTGGGGATTGGTCTGTCTGGCGGCAGTCAGGATACCTGTCTTTCCTGGTAGGAATGAGTTACAGGTGTTTCCTCTGCCGTCACACTCAG
Seq C2 exon
GTAGGAAGAACTCTCGCACTATGCTGCTCCCACTCCTGCAGAGGTTTCCAGAGCGCGTGCGCGTCTCCCTCTTCCACACACCAAACCTCCGAGGACTCCTCCGACTCCTTATCCCTGAGCGCTTCAATGAGACCATCGGCCTCCAGCACATCAAGGTGTACCTCTTTGACAACAACGTCATCCTGAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017715:ENSMUST00000132676:4
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=0.000
Domain overlap (PFAM):
C1:
PF130911=PLDc_2=FE(20.6=100)
A:
NA
C2:
PF130911=PLDc_2=FE(39.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGATTGTCTGGAAAGTTCTCT
R:
CCACTCAGGATGACGTTGTTGT
Band lengths:
290-925
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