Special

MmuALTD0003585-2/2 @ mm9

Alternative 5'ss

Gene
ENSMUSG00000026853 | Crat
Description
carnitine acetyltransferase [Source:MGI Symbol;Acc:MGI:109501]
Coordinates
chr2:30268503-30270853:-
Coord C1 exon
chr2:30270832-30270853
Coord A exon
chr2:30270715-30270831
Coord C2 exon
chr2:30268503-30268766
Length
117 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GGCTGTTCTGCATCCCACAGGTA
3' ss Score
9.37
Exon sequences
Seq C1 exon
AGCCTTTGCTGCCAGAACCGTG
Seq A exon
GTGAGTTCGCCCAGCAGGGCCATGGACGGGACAAGACGGGCGGGCCTCCAGCAACGGTCAAGAAAACCCCAGACCGGCTGGTAGGGTGCGATCTGCAAGGTGGATAAAGGAGACCAG
Seq C2 exon
GTAAAACCCCTGGGCCTCCTCAAGCCCTCCTCCTTGATGAAGGTTTCTGGTCGCTTCAAGGCCCACCAAGATGCACTGCCAAGGCTGCCTGTGCCCCCACTTCAGCAATCCCTGGACTATTACCTCAAGGCACTGCAGCCCATCGTGAGTGAGGAAGAATGGGCTCACACCAAGCAACTGGTGGATGAGTTTCAGACCTCAGGGGGCGTAGGGGAACGCCTACAGAAGGGACTGGAGCGCAGGGCCAAGAAAATGGAGAACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026853-1-16,2-16-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence inclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.083
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0075515=Carn_acyltransf=PU(10.8=71.6)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000117317





     
                   









    
Main Skipping Isoform:
ENSMUSP00000028207





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000028207f2015A, ENSMUSP00000099919, ENSMUSP00000119735
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:131872587-131872588 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:99589339-99589340 
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: 
CCTTTGCTGCCAGAACCGT

				
R: 
CCTTCTGTAGGCGTTCCCCTA

				
Band lengths: 
249-366

			

		

	





	
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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