Special

MmuALTA0016987-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26219158-26221557:-
Coord C1 exon
chr2:26220140-26221557
Coord A exon
chr2:26219289-26219312
Coord C2 exon
chr2:26219158-26219288
Length
24 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CCATTCCCTACCCTGGCTAGAGC
3' ss Score
4.36
Exon sequences
Seq C1 exon
TCCTTTCCCAGGAAAGTGAGGCAGCCATCGTCACATGGCTGAAGGGGTGCCAAGGTGCTTTTGTACCCCCGCTGGGGAGCAGGATGCCCTATCATCCCCCTTCCCTGTGCAGCTTGCGGGCATTGTCCAGCCTCCTCCTCCAGAAACAGGACTTGGAGCAGAAGGCTTCCTCTCTGGCGGCCAGCCAGGCAGCTGGGGCCCAACCTGATCCCAAGGCTGGAGCCCTACAAGCTTCCCTGGAGCTGGTACAGAGGCAATTCCGGGACAACCCAGCCTACCTCCTGCTAAAGACGCGTTTCCTGGCTATCTTCTCCCTTCCTGCATTCCTGGCCACTCTGCCCCCCAACAGCATCCCCACCACCCTGTCACCAGACGTGGCTGTGGTTTCTGAGAGTGACAGTGAAGACCTCGGTGACTTGGAGCTCAAGGATAGGGCTAGACAGTTGGACTGCATGGCCTGCAGAGTGCAAGCAAGCCCAGCAGCCCCAGACCCTGTACAG
Seq A exon
AGCCACCTTGTCTCCCCTGGTCAG
Seq C2 exon
AGAGCTCCAAGTCCTGGTGAGGTTTCTGCTCCCTCCCCTCTGGATGCTTCTGATGGCCTTGATGACCTTAACGTGCTCAGGACTCGACGTGCTCGGCATTCCCGGAGATAGAGGTTGCTTTGAGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281-37-38,37-37-2/2
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=0.588 A=NA C2=0.861
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000109750





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000041767
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:139270975-139270976 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:103885706-103885707 
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: 
TTGGAGCTCAAGGATAGGGCT

				
R: 
AGCAGAAACCTCACCAGGACT

				
Band lengths: 
114-138

			

		

	





	
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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