Special

MmuALTD0013676-2/3 @ mm10

Alternative 5'ss

Gene
ENSMUSG00000026811 | St6galnac6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:MGI Symbol;Acc:MGI:1355316]
Coordinates
chr2:32614781-32618604:+
Coord C1 exon
chr2:32614781-32615168
Coord A exon
chr2:32615169-32615187
Coord C2 exon
chr2:32618497-32618604
Length
19 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TGACTCCTCTCTGCCCCCAGGGA
3' ss Score
12.06
Exon sequences
Seq C1 exon
ACGCTGCCGTCCAGGTGCAACCAGTGTGTGATCATCACCAGCTCCAGCCACCTGCTGGGCACCAAACTGGGCCCTGAGATTGAGCGGGCTGAGTGCACCATCCGCATGAACGATGCTCCCACCTCTGGCTACTCGGCTGACGTCGGAAACAAAACCACCTTCCGCGTAGTGGCCCATTCCAGTGTATTCCGTGTGCTGCGGAAGCCCCAGGAATTTGTCAACCGGACCCCTGAGACGGTGTTCATCTTCTGGGGACCCCCAAACAAGATGCAGAAGCCCCAGGGCAGCCTCCTGCGCGTCATCCAGCGGGCGGGCCTCATGTTCCCGAACATGGAGGCCTATGCCGTCTCTCCCGCCCGCATGCAGCAGTTTGACGACCTCTTCCGGG
Seq A exon
GTGAGACGGGCAAGGACAG
Seq C2 exon
GGAAAAGTCCCATTCCTGGTTGAGCACGGGCTGGTTTACCATGGTGATTGCGGTGGAATTGTGTGACCATGTGCACGTGTATGGCATGGTCCCTCCTGACTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026811-18-23,19-23,20-23-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.045 A=NA C2=0.004
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0077713=Glyco_transf_29=FE(72.5=100)

							
A:
NA

							
C2:
PF0077713=Glyco_transf_29=PD(13.4=93.3)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000080555





     
                   









    
Main Skipping Isoform:
ENSMUSP00000138916





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000071983, ENSMUSP00000092654, ENSMUSP00000092655, ENSMUSP00000108915, ENSMUSP00000114934, ENSMUSP00000115430
          









    
Other Skipping Isoforms:
ENSMUSP00000118893, ENSMUSP00000141412, ENSMUSP00000141437
  



Associated events







Conservation


Human
(hg38)
chr9:127890635-127890636 
Human
(hg19)
chr9:130652914-130652915 
Rat
(rn6)
chr3:11635861-11636267 
ALTERNATIVE
RnoALTD0029419-3/3
(St6galnac6)
Cow
(bosTau6)
chr11:98572244-98572650 
ALTERNATIVE
BtaALTD0021038-2/2
(ST6GALNAC6)
Chicken
(galGal4)
chr17:4874070-4874071 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr21:3671132-3671133 
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CAGTTTGACGACCTCTTCCGG

				
R: 
CCATACACGTGCACATGGTCA

				
Band lengths: 
106-125

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Ribosome-engaged transcriptomes of neuronal types
  • 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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