MmuINT0117565 @ mm9
Intron Retention
Gene
ENSMUSG00000026784 | Pdss1
Description
prenyl (solanesyl) diphosphate synthase, subunit 1 [Source:MGI Symbol;Acc:MGI:1889278]
Coordinates
chr2:22770722-22771044:+
Coord C1 exon
chr2:22770722-22770833
Coord A exon
chr2:22770834-22770934
Coord C2 exon
chr2:22770935-22771044
Length
101 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
ACCCTTCTCCTTCTTGATAGGTG
3' ss Score
11.15
Exon sequences
Seq C1 exon
GCTGTTCTTGCTGGAGATTTAATTCTTTCTGCAGCGTCTGTAGCTCTGGCACGGATTGGAAACACAGCTGTTGTATCTATGTTAGCCCAAGTTATTGAAGATTTGGTGCGTG
Seq A exon
GTAAGTCGGTTCTGATGTTTCTTTTTTATTTAGAATACCAGTTCTGGTATTTAGCCAGGCAATAAAACCGTATCTCAAGTAACCCTTCTCCTTCTTGATAG
Seq C2 exon
GTGAATTTCTTCAGCTAGGGTCAAAAGAAAATGAGAATGAAAGGTTTGCCCACTACCTTGAGAAGACCTTCAAGAAGACAGCCAGCCTGATAGCCAACAGTTGTAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026784-Pdss1:NM_019501:6
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:
PF0034812=polyprenyl_synt=FE(14.1=100),PF073076=HEPPP_synt_1=FE(27.4=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=PD(25.2=87.2),PF073076=HEPPP_synt_1=PD(29.3=83.0)
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:
GCTGTTCTTGCTGGAGATTTAAT
R:
TTACAACTGTTGGCTATCAGGCT
Band lengths:
218-319
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: