Special

MmuALTD0013676-1/2 @ mm9

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
chr2:32470301-32474102:+
Coord C1 exon
chr2:32470301-32470688
Coord A exon
NA
Coord C2 exon
chr2:32474017-32474102
Length
0 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGA
5' ss Score
4.74
3' ss Seq
TGACTCCTCTCTGCCCCCAGGGA
3' ss Score
12.06
Exon sequences
Seq C1 exon
ACGCTGCCGTCCAGGTGCAACCAGTGTGTGATCATCACCAGCTCCAGCCACCTGCTGGGCACCAAACTGGGCCCTGAGATTGAGCGGGCTGAGTGCACCATCCGCATGAACGATGCTCCCACCTCTGGCTACTCGGCTGACGTCGGAAACAAAACCACCTTCCGCGTAGTGGCCCATTCCAGTGTATTCCGTGTGCTGCGGAAGCCCCAGGAATTTGTCAACCGGACCCCTGAGACGGTGTTCATCTTCTGGGGACCCCCAAACAAGATGCAGAAGCCCCAGGGCAGCCTCCTGCGCGTCATCCAGCGGGCGGGCCTCATGTTCCCGAACATGGAGGCCTATGCCGTCTCTCCCGCCCGCATGCAGCAGTTTGACGACCTCTTCCGGG
Seq A exon
NA
Seq C2 exon
GGAAAAGTCCCATTCCTGGTTGAGCACGGGCTGGTTTACCATGGTGATTGCGGTGGAATTGTGTGACCATGTGCACGTGTATGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026811-14-17,15-17-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption when splice site is used (sequence exclusion)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.051 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0077713=Glyco_transf_29=FE(49.3=100)

							
A:
NA

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

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000080555





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000071983, ENSMUSP00000092654, ENSMUSP00000092655, ENSMUSP00000108914, ENSMUSP00000108915, ENSMUSP00000114934, ENSMUSP00000115430, ENSMUSP00000118893
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:130652933-130652934 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:98572261-98572262 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chrUn_random:7558737-7558738 
Zebrafish
(danRer10)
No conservation detected
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
  • 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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