Special

MmuALTA0012992-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000026784 | Pdss1
Description
prenyl (solanesyl) diphosphate synthase, subunit 1 [Source:MGI Symbol;Acc:MGI:1889278]
Coordinates
chr2:22762315-22768219:+
Coord C1 exon
chr2:22762315-22762445
Coord A exon
chr2:22768037-22768119
Coord C2 exon
chr2:22768120-22768219
Length
83 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGT
5' ss Score
7.53
3' ss Seq
AATACAATTCTTTATCCTAGATT
3' ss Score
6.05
Exon sequences
Seq C1 exon
GAGCTGCACATCTCCACCAGAGAACTAAAGGACATGTCCGAATACTACTTCGATGGCAAAGGAAAAGCCTTTAGACCGATTATTGTGGTGCTAATGGCCCGAGCGTGTAATATTCATCATAATAATGCCCG
Seq A exon
ATTCGATATCCAGTTTTCACAAGATGATTGCTGAGAAGGTTCTAGGCGGCGTCTGTTAAAAAGCATTGCTTTCTGTTAATTAG
Seq C2 exon
AGAGATGCAAGCCAGCCAGCGCTCCATAGCCTTAGTTGCAGAAATGATCCACACTGCTACTCTGGTTCATGATGACGTTATTGATGATGCAAGTTCTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026784-8-7,8-6-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence inclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.006 A=NA C2=0.005
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0034812=polyprenyl_synt=PU(13.7=81.8),PF073076=HEPPP_synt_1=PU(5.9=18.2)

							
A:
NA

							
C2:
PF0034812=polyprenyl_synt=FE(17.9=100),PF073076=HEPPP_synt_1=FE(34.8=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000055689





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000055689f1998A, ENSMUSP00000121873
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr10:26720133-26720134 
ALTERNATIVE
HsaALTA0006175-2/2
(PDSS1)
Human
(hg19)
chr10:27009064-27009288 
ALTERNATIVE
HsaALTA0006175-2/2
(PDSS1)
Rat
(rn6)
chr17:90053666-90053890 
ALTERNATIVE
RnoALTA0028620-2/2
(Pdss1)
Cow
(bosTau6)
chr13:18202189-18202190 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAGCTGCACATCTCCACCAGA

				
R: 
TGGATCATTTCTGCAACTAAGGCT

				
Band lengths: 
182-265

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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