rs27198642 SNP Detail

Summary

• ID
  rs27198642
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:25777305 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCACATTGTC CTTCTAGCCT
  TCTGTCCTAT GGTCCCTGGT ACTGTGTCCC ACATCATTTC ATCCTAGGGA CATTGCAGCC
  TGTTGGGGAG GACGTACTGG TAGGAGCCAT GTGTCCTCTC AAGGGTACCT GACTGCCCCA
  GTTCACAGGG GAAATGCTGC AAGCTGGCCA CACTTGCTAA AGGAGTCCAG GCTCCGAACT
  Y
  GGACTCCTCC CATTCTTCCT ATGTCAGCAC GGATGTTTCA CCTCCTGCTT CTGAATGTTT
  CTGAAGCTGA GGAGAGCAGG ACCACGTCTG AGGCTGGGAT CCTGAGAATA GAGGCTTATC
  TTCCATTAGC CACAGTTAAT CTCAGTGAAC ACTTGGCTCT TCCTGGGTGT GGCACTGGGG
  CATCAGTGAG CAGTGAATAG                                            
  
  Y = C/T
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37420862	NES08764129	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27198642					SNP	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss37420862	NES08764129	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:25777305 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Kcnt1	potassium channel, subfamily T, member 1			Intron
				Noncoding-Transcript-Variant
Rr553167	regulatory region 553167			1302 bp distal
Rr553168	regulatory region 553168			24 bp proximal
Rr553169	regulatory region 553169			1058 bp proximal
Tssr16777	transcription start site region 16777			1922 bp upstream