Special

MmuALTA0009523-3/3 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000001901 | Kcnh6
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6 [Source:MGI Symbol;Acc:MGI:2684139]
Coordinates
chr11:105885039-105887192:+
Coord C1 exon
chr11:105885039-105885232
Coord A exon
chr11:105887002-105887111
Coord C2 exon
chr11:105887112-105887192
Length
110 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
GTTTCTACTTTCTCACTCAGCCG
3' ss Score
5.72
Exon sequences
Seq C1 exon
GGAAGAATGACATCTTTGGGGAGCCTGCCAGTCTCCATGCCAGACCAGGCAAATCAAGCGCCGATGTGCGTGCCCTGACCTACTGCGACCTGCACAAGATCCATCGAGCAGACCTGCTGGAGGTGCTGGACATGTACCCCGCCTTTGCAGATACCTTCTGGAATAAGCTAGAGGTCACCTTCAACCTGCGGGAC
Seq A exon
CCGGTGACAAGGGTCACAGAGGGGACCTTGGGGACAGGGAGGAACAAAGAAAGAGACCCTGTCCCAGCCCTGGTCCCTGTCACTTGTTGCTCTTGTTCCCTACAAGGCAG
Seq C2 exon
ATGGGGGTCTCCACTCAACACCCCGACAGGCCCCAGGCAACCAAGACCCCCAAGGCTTCTTCCTCAATGACAGCCAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001901-11-12,11-11,11-10-3/3
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=0.015 A=NA C2=0.793
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0002724=cNMP_binding=PD(53.4=72.3)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000001965





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000049507, ENSMUSP00000102516
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:63543483-63543660 
LOW PSI
HsaALTA1047033-4/4
(KCNH6)
Human
(hg19)
chr17:61620842-61620843 
Rat
(rn6)
chr10:94224874-94224875 
Cow
(bosTau6)
chr19:48509898-48509898 
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: 
ATGACATCTTTGGGGAGCCTG

				
R: 
GAAGAAGCCTTGGGGGTCTTG

				
Band lengths: 
250-360

			

		

	





	
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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