Special

MmuALTA0013653-3/4 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3523758-3524166:+
Coord C1 exon
chr8:3523758-3523867
Coord A exon
chr8:3524011-3524100
Coord C2 exon
chr8:3524101-3524166
Length
90 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TTACCCAGACCCCCACTCAGGAG
3' ss Score
0.19
Exon sequences
Seq C1 exon
GCTTGCAAGGTGGCCCTCGTTCTGATTTTGACATGGCCTATGAACGTGGACGGATATCTGTTTCTCTTCAAGAAGAGGCATCTGGGGGACCTCAGACAGCATCCCCTAGG
Seq A exon
GAGCTCCGGGAGCAGCCAGCGGGTGCCTGTGAATATAGCTACTGTGAGGATGAGTCAGCCACAGGCGGATGTCCCTTTGGGCCCTACCAG
Seq C2 exon
GGCCGCCAGACAAGCAGCATCTTTGAGGCTGCAAAGAGAGAGCTAGCCAAGCTGATGCGGATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565-19-18,19-17,19-16,19-15-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (No Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.946 A=NA C2=0.214
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000004681





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000106699
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr19:7542773-7542928 
LOW PSI
HsaALTA1002229-1/3
(PNPLA6)
Human
(hg19)
chr19:7607657-7607658 
Rat
(rn6)
chr12:2078318-2078473 
LOW PSI
RnoALTA0030107-1/2
(Pnpla6)
Cow
(bosTau6)
chr7:17630863-17630864 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chrUn_random:60652351-60652351 
Zebrafish
(danRer10)
chr1:45205817-45205981 
HIGH PSI
DreALTA0020809-2/2
(pnpla6)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGGTGGCCCTCGTTCTGATTT

				
R: 
CAATCCGCATCAGCTTGGCTA

				
Band lengths: 
167-257

			

		

	





	
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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