Special

MmuALTA0009539-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000058740 | Kcnt1
Description
potassium channel, subfamily T, member 1 [Source:MGI Symbol;Acc:MGI:1924627]
Coordinates
chr2:25747994-25748743:+
Coord C1 exon
chr2:25747994-25748077
Coord A exon
chr2:25748613-25748648
Coord C2 exon
chr2:25748649-25748743
Length
36 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
CTCTGCTTGTTATGCATCAGGGT
3' ss Score
5.97
Exon sequences
Seq C1 exon
GTCTTCTGGCCACCTCTGCGGAACCTGTTCATCCCCGTGTTTCTCAACTGCTGGCTGGCCAAGCATGCGCTGGAGAACATGATT
Seq A exon
GGTGTCTGTGGGTTCTGATGGCTGCATTCTCTGCAG
Seq C2 exon
AATGACTTCCACCGTGCCATCCTACGCACACAGTCAGCCATGTTCAACCAGGTGCTCATCCTGTTCTGCACCCTGCTGTGCCTGGTCTTCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058740-11-15,11-14-2/2
Average complexity
Alt3
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=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0788511=Ion_trans_2=PU(13.6=34.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000039058f5088A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000039058, ENSMUSP00000039058f5087A, ENSMUSP00000039058f5089A, ENSMUSP00000039058f5090A, ENSMUSP00000046284, ENSMUSP00000109807, ENSMUSP00000109809, ENSMUSP00000109813, ENSMUSP00000132212
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:138650204-138650205 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr17:8919768-8919769 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTCTGCGGAACCTGTTCATCC

				
R: 
ACCTGGTTGAACATGGCTGAC

				
Band lengths: 
124-160

			

		

	





	
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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