rs13489872 SNP Detail

Summary

• ID
  rs13489872
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  121
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr18:37277306 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

             AACCATTTGG GTGCACCCAG CCCGCGCTAC CTGGAACTGG ACTTGACCAA
  Y
  GGAGCGCTCT TCGTCAACGA GCGGATAGAT CGCGAGGCGC TGTGCGAGCA           
  
  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	A/HeJ	A/J	AVZ/Ms	BALB/cByJ	BALB/cUcsd	BFM/2Ms	BLG2/Ms	C57BL/6J	CAST/EiJ	CHD/Ms	DBA/1J	DBA/2J	HMI/Ms	JF1/Ms	KJR/Ms	LG/J	MSM/Ms	NJL/Ms	NZB/BlNJ	NZW/LacJ	PGN2/Ms	SM/J	SPRET/EiJ	SWN/Ms
ss20405236	PS02184781	PERLEGEN	MM_PANEL	f	SNP	T	T		T					C										T	T			C
ss28533945	CNRvc2_004	KOKORO_BIOLOGY_GROUP	KOKORO_MOUSE	f	SNP			T		T	C	C	T	C	C	T	T	C	C	C		C	C			T			C
ss325585084	CHEV_18_37303907	CHEVERUD	SCREENING_POP	f	SNP																T						C
SNP Consensus Information
SNP					Consensus Type	A/HeJ	A/J	AVZ/Ms	BALB/cByJ	BALB/cUcsd	BFM/2Ms	BLG2/Ms	C57BL/6J	CAST/EiJ	CHD/Ms	DBA/1J	DBA/2J	HMI/Ms	JF1/Ms	KJR/Ms	LG/J	MSM/Ms	NJL/Ms	NZB/BlNJ	NZW/LacJ	PGN2/Ms	SM/J	SPRET/EiJ	SWN/Ms
rs13489872					SNP	T	T	T	T	T	C	C	T	C	C	T	T	C	C	C	T	C	C	T	T	T	C	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr18:37277306 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9898	CpG island 9898	within coordinates
Gm37388	predicted gene, 37388	within coordinates
Gm38666	predicted gene, 38666	within coordinates
Gm38667	predicted gene, 38667	within coordinates
Pcdha1	protocadherin alpha 1	within coordinates
Pcdha2	protocadherin alpha 2	within coordinates
Pcdha3	protocadherin alpha 3	within coordinates
Pcdha4	protocadherin alpha 4	within coordinates
Pcdha4b	protocadherin alpha 4B	within coordinates
Pcdha5	protocadherin alpha 5	within coordinates
Pcdha6	protocadherin alpha 6	within coordinates
Pcdha7	protocadherin alpha 7	within coordinates
Pcdha8	protocadherin alpha 8	within coordinates
Pcdha9	protocadherin alpha 9	within coordinates
Pcdha10	protocadherin alpha 10	within coordinates
Pcdha11	protocadherin alpha 11	within coordinates
Pcdha12	protocadherin alpha 12	within coordinates
Pcdhac1	protocadherin alpha subfamily C, 1	within coordinates
Pcdhac2	protocadherin alpha subfamily C, 2	within coordinates
Rr536246	regulatory region 536246	740 bp distal
Rr536247	regulatory region 536247	618 bp distal
Rr536248	regulatory region 536248	490 bp distal
Tssr150691	transcription start site region 150691	557 bp downstream
Tssr150692	transcription start site region 150692	524 bp downstream