Special

MmuINT0085518 @ mm9

Intron Retention

Gene
ENSMUSG00000001901 | Kcnh6
Description
potassium voltage-gated channel, subfamily H (eag-related), member 6 [Source:MGI Symbol;Acc:MGI:2684139]
Coordinates
chr11:105870297-105875603:+
Coord C1 exon
chr11:105870297-105870527
Coord A exon
chr11:105870528-105875441
Coord C2 exon
chr11:105875442-105875603
Length
4914 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
CCTGCCAATGGGGTTTGCAGCCT
3' ss Score
3.86
Exon sequences
Seq C1 exon
GTCGTAAGTTCCTGATTGCCAATGCACAGATGGAGAACTGTGCCATCATCTACTGCAATGATGGCTTCTGCGAACTCTTCGGCTACTCCCGTGTGGAGGTGATGCAGCGACCCTGTACCTGTGACTTCCTCACTGGCCCGAACACTCCGAGCAGTGCTGTGTCCCGCCTGGCGCAGGCCCTGCTTGGGGCTGAAGAGTGCAAGGTGGACATCCTCTACTATCGCAAGGATG
Seq A exon
GTGAGACTCAGTTGGGCCAAGGGTCCTGTAGGCTACCTTTCTTGTCTATCATGGAGTGCCCTGGGGGAAGGGTCTGACCTAAGAGCCAAAGAGCCTGGACCACTTCTATCCCCACTCTGGGCCTTGGTTTCCTTAGTATTAGAGAGAAGCAATGAGAATTGCATGTTATGTCTTCTAAGGGACTTGAGATTGGGCTGAGCCAGCTATTGGTACTGGTATAGAACAGCCTCTTGCTCCACTTTCCCTCCCCCACCTCCCAGCTACCTACTCTGTCACTGCCAGCCCCAGCTGTCAAGGATGGAAATTAACCTTCCCTCATCTGCTCTGGGGATTAAGGGAGGAGTCAGCCCCCCAAGGTCTCTCTGGCTAGGCAGTGCATGGGGGCTGCTGGCTGAAAGGAAGAGTGAATCTGGCTCACTTAGGTCCAGTGGTTTGGGAAGGTAGCCTTGGGTTTGCTGTCACCAGGTGGCTTACCTAGATGGACTTTGTGTTTTTAAGTTCTGCCCGAGCCCTTGGAAAGCACAACAGAAACATAAGCTAAGGGCTGGGGGCCAAAAGCTCAGCATCCTTCAAGTCTCCCTCAGTGGATGAGGGTGTGGAACTATAGTCAGAAACCGAGTCTCTTGGAAATCACCAGCATCTCCCCCAAACCGGTTCTGCATCAGAATTACCTGGGGCGTGCTTTGCAAAACACACCTTCCCTAGAGAGAGGCTGACTCAGAAGGTGCAGGGTGAAGCCAGGCAGGTGTATCTGGAAAAAAAATCCCCAGTGGTTCTGATTTGCTGCCAATGTTAAAAGCCATTGGCTTAGATAACTCCCTCCATTTCACGGGTGTGGAAGGCCCTTCTCCAAGATCCCATTGCCAGGGCGCAACTGGAACTCTCTCTCAGAGATGTTTTTTGTTCAGAGTAATCCCAAGAAAGAAAGGACCTCAACTCTCTCCATGCTTGGAAGCAGGAATTTGGGGGAAGAAACACCCAGAAGAGAGAAGTTGTCCCCTGGGAACCATCAGAGAGTACAAACAGGGCAGGCACCTCTAGATTGAAGTCAAGGGGTGCTAAGAACCTAACTTCCAGAGGCTTGGTGTGTGCACGGGACATGACTGCGTGCATATGTGTGTTCATATGTGTGTGTGTATGCACATGTGTATGCATGCGTGTATACATGGATATGTGTGTACACATGTATGTACATGCATGTGCATGTGTGTATGCATATGTATATGCATGCATATGTGTATATATGTGTGACTGTGTGTGTATGCATGTGTGTGCTTGTGTGTGTGTTTACAGAATTCTGAGGGCTTCTCAACACAGATCTTGGCCACACCCCTGGCTATCCCTTTCTGCTACTAGCCAAGTGAGTTGTAGGTGGGAGGTGCTGTGATAGAGGCAAAGAACAGGAGACCTGGAAAGCATCCAGCTTAGGTTGGCTGTACTCACAGGGTTAACAAAGTCAGAATATTTTTAAAAGCTGCGACTTCACCTCTTCACATCATTGCAAGGAAGAGGTGACAGTCAGGGGAGTGAGAAGGGTCCCAGAGGAACAAGATGGGACAGCGGGAAGTGGAGGTGCCAAGAGAGTAGGTCCGTTCTGTTTCTTTCCTTGACCCTAGAGCTCTACGTGCACCCCAGAGAGTGAGGGACAAGCATGAGATCCTGGGCTTTCAGACCCTGTAGGTATCCAGACAAAAGGCAGCGCTCAAGACTGTCTTGGCCCCTCAGATCAAGACTCAGGTCTTCAGAAGTCTATCAAGGTTCGTTAGCTAACAGAAAGGACCCTGGGAACCTAGTCTTGGAGACTGGCTCTGGGTGGAAAGATAAAATTTCCCACATATCTGGTGCACCGCAGTTCCGGCTTGCACCATTCCGCCTTCAGGCCTTCCTTGTCCTGTTATCTAAGCCTCTGACCACCTGGACCATCCTGAATTGGCCTGAAGCCAAAAGATAGCCTACACTGCCCTGCAGTGCTCAGATAATTTATGTCCACATTAACAGTCTACTCTGACCATGTGATTTTTAAATATGATTTAAAAATCATATTCATATGATTGCACAGAAAGGTATCCTAGCGGTGATTTCTTCTTTCTTTCTCTCTGCCCCAACCTCTGACTCCAGGGCTGATGGAAGGGGTTCTGAACACATCCCCAACTGGTTTATTTATAATCCACCCCTTATTTTTGGTTTTTTGAGACAGGATATCACTGTGTAGCCTTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTTGGAGATCAACTTACCTCTGTTTCCCAAGTGCTGGGATTAAAGATGGGCGCCACCACGTCCTGGCTTCCTCTTTCCCTTTAAAAGGGTGATCTACTGAAAATTCTATCTCTATGTCCTAAGTCTACTCACAGAGCTACAGCTGTGTATCGCCATGGTCACTTCCCTGTCAGAAAACCCTGGGAATCAAAGCCTTTCCTCTGCTTCCCTTTGTCAGGAAAGGAAAAACCCTAAAGCTGAAGAAGGGAGGCCATGACAAATTGGACAAAGCCAATAACTGTCCGCAGATCCATCACCCCTGCATCCGCCCTAACAGACACCTGCCAGAGGGTCTAGCCCTGCCTACCTTCACCAAGCCCTATACTGTGATGAGCCCAAACCCCCCAAGCTAGACTAGAGACCCGGTATTTTTCTAGTCTGTAGCTCCAGGTAAGAAGGCCAGGGCTCTCCCCACTCTCCCTCCGACCCTATGTTTTCCACACACTAACCTACACATTTCAGGATGGTAAAGCCGAGAGCAGTGTAGCCACCCCTCCCCGTAGCAGCATCAGCTTGCAGCAGCAGTCTCCTAAGGGCTCTCAGCTCAGTGCTAAGCGAGGTGCACATAAAGAGACGGGGCAGGGCAAGGGGTGCGGCTTGGTGGTAAAGCATTTGTCTTGCACGCATGATATCTTGGGTTTCAACCACAGACTCCTAAAAGGTAAAAGACAACAAGGAGGCCATGTTGAAGAGAGGGTAAGCGGAGGATGGGGAAGGGACATAAACTATGAGAAATAAGACTAGCATAGCCAAGGGGTGGAAGATCCGAAGGAAGTGGGGTAATCTAGGGGCCAGACAACTCCTCTTAATCAGAGGAGTTCGTGGTGAGAGGAGCGTCTTGGAGGAAGAATCAGGCAGAGACTGGCTCTTCCTCCAGGGACAGAGCAAAGACACTGGAACTTTGCCATTCCTCGATACAGACAAGGACAATTCCCTCTTCCACTGAGCTAGTTACTTGTGGGCTCTGAGTCACAGGTAAGGTATAGGGAGAGAAATCACTCAGGCTTTTTGAAAATCCTCTCATCTGCTACCACTGGAGTGGTGTGTGGGACAAGGAAAGCCACATGAGAACACTACCAGCTCCTCAGCTCTCGCTGATACAAGGGTCCATCCCAAGACTCTGCATCCATGGGGTACAACCAGTTGAAGATGGCTCTGGGAAGTCCCAGAGGCACAGGAGATCTGGAGCGCCTGCACTTCTGCTCGGCTCCACTCCTCACCTGGTATTAGGTTAATTCCCCAGGGCCAGAGAGACAGAGAGCATAGTGTGGTCTTAGGGACAGGAATGTCGCTGTGCCCCAAGCTGACCAGAGTCATTGTAGCACTATGAGCCCAGGAGTGGCTCAACAGGCAGGCAGTGTCTCTGGTGTGGATGTCTCCCCTGGGCCCAGGCACCAGCTGGCAGATGGCTGCCTGGTGCCTGGGAGTCCAGGAATCTGATCCTGATCCGGGCGATTCCTGCTCCCGGGAGGAACATGGGAAGGAAGATGGGGGTGGGGCACAGCTGCAACCCAGCTTGGAAAGTGAGTGCTAAGTATGGGGTCTGATGAAAAGAAGTTCCGGACTTCAGTGTTCCTCCTACACGGCTTGGATCCATTGTCCTTTCGCAGTCACTGGGTTGGTTATCAATCCCTGGGAGAGGTGACACAGACCCAAACCTGCCCTCTGGAAAAGCAGCTTGGCTTTCTGATCTGCATGGTCACCTGAGCCTGCTGTCCCTGGGGATCCTGCCTTTTGGAACTGACACCTAACAATAGTTTGAGTTAATAGATATAGCACACCTAAAGGGTGCCTGCTCACAGGCTGGACTGACATAGGCAGCATTTTGACTTATAATGATCTGCCTGCCAATGGTGAGACCCTAGAACAAGGTGACAATTAGTGTGGCCAGAGGCATGAGGTGCCAACAGTAGGATCTGGGATGCTAAGAGCTCTTATTTCCATGGCCTTCTCCTTCTTTAGCCCCCCAGGTCACTACCCTGTCTACTCGTTACTATTCCAGCTCTATATTTAAAAGAGAGACCTTTTCCTTTTCCCCACAACCTCTTATCTGCCGAGAGACTAGGGGTCCTCACCCCACATCCCCCACCAGCTCCAACAAACCAGTTTCTCAGAACCTTCATTTGCCTGCTCCCAGAACCTCCTAAGGCCTAATGTGCCAATTGGCTCCATGCCCAGCAGTTGATGTGTTCCTAGCAAGTTGCTTCCAACAGTAGGGGAAGCAGGCGTCTTTGTGGGATGGCTATATGGGAGCTGAGCCCAGGGCCAGCCAGAGCTACAGGAGGATGGTATGCCCTCCCTCACCTCCCTACTTAATCCACCCCCATCTGCTAAGCCTTAATTACCACAGAAGCAAACCTCAGAGCTAAGCCCTGGACTGAGGGCTGAACAGGGGCTTGGACCTGATGCTACACTATCTCCTAATGAGCGGCTCTGCCCTGTGGAGGGTGGAGGGGACCCGCTGGACAGCTTTACCTACCCTCTGCCAAATAGCTCTGGTCGCTGTCCAGGCCTCTTCTCTCCACCCTTCCTTTGACCTTCACGCGGGTCCTTCCTTAGCCACTGCAGGAGGGGCCTCCTCAGTGACCGACCCTTTCCCTGCCAATGGGGTTTGCAG
Seq C2 exon
CCTCCAGCTTCCGCTGCCTGGTGGATGTGGTCCCTGTGAAGAACGAGGATGGGGCTGTCATCATGTTCATCCTCAATTTCGAGGACCTGGCCCAGCTCCTGGCCAAGAGCAGCAGCCGCAGCCTGACCCAACGTTTGTTGTCACACAGCTTCCTGGGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001901-Kcnh6:NM_001037712:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.021
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134261=PAS_9=PU(70.1=96.2)

							
A:
NA

							
C2:
PF134261=PAS_9=PD(29.0=56.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000001965





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000102516, ENSMUSP00000116425
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:63524370-63530090 
ALTERNATIVE
HsaINT0084364
(KCNH6)
Human
(hg19)
chr17:61601731-61607451 
ALTERNATIVE
HsaINT0084364
(KCNH6)
Rat
(rn6)
chr10:94208426-94213263 
ALTERNATIVE
RnoINT0077780
(Kcnh6)
Cow
(bosTau6)
chr19:48491768-48497078 
ALTERNATIVE
BtaINT0079607
(KCNH6)
Chicken
(galGal4)
chr27:2672091-2678456 
LOW PSI
GgaINT1000141
([1])
Chicken
(galGal3)
chr27:4506521-4506616 
ALTERNATIVE
GgaINT0142779
(KCNH4)
Zebrafish
(danRer10)
chr3:31637242-31644263 
LOW PSI
DreINT0084860
(kcnh6a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"