rs24887660 SNP Detail

Summary

• ID
  rs24887660
• 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
  Chr18:37277951 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

             TCCTTGAGCA GCTACACATC AGACCGGGAG AGACAGCTCT TCAGCATCGA
  Y
  GTGACTACAG GGGAAGTGAG AGTAAGTGGG ACTCTGGATT ATGAGGAGTC           
  
  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	AVZ/Ms	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	PGN2/Ms	SM/J	SWN/Ms
ss28533953	CNRvc2_012	KOKORO_BIOLOGY_GROUP	KOKORO_MOUSE	f	SNP	C	T	C	C	T	C	C	T	T	C	C	C		C	C	C		C
ss325585088	CHEV_18_37304552	CHEVERUD	SCREENING_POP	f	SNP													T				C
SNP Consensus Information
SNP					Consensus Type	AVZ/Ms	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	PGN2/Ms	SM/J	SWN/Ms
rs24887660					SNP	C	T	C	C	T	C	C	T	T	C	C	C	T	C	C	C	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr18:37277951 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9898	CpG island 9898	70 bp distal
Gm37388	predicted gene, 37388	Intron
Gm38666	predicted gene, 38666	Intron
Gm38667	predicted gene, 38667	Intron
Pcdha1	protocadherin alpha 1	Intron
Pcdha2	protocadherin alpha 2	Intron
Pcdha3	protocadherin alpha 3	Intron
Pcdha4	protocadherin alpha 4	Intron
Pcdha4b	protocadherin alpha 4B	Intron
Pcdha5	protocadherin alpha 5	Intron
Pcdha6	protocadherin alpha 6	Intron
Pcdha7	protocadherin alpha 7	Intron
Pcdha8	protocadherin alpha 8	Intron
Pcdha9	protocadherin alpha 9	Intron
Pcdha10	protocadherin alpha 10	Intron
Pcdha11	protocadherin alpha 11	Intron
Pcdha12	protocadherin alpha 12	Intron
Pcdhac1	protocadherin alpha subfamily C, 1	Intron
Pcdhac2	protocadherin alpha subfamily C, 2	Coding-Synonymous
Rr536246	regulatory region 536246	1385 bp distal
Rr536247	regulatory region 536247	1263 bp distal
Rr536248	regulatory region 536248	1135 bp distal
Tssr150691	transcription start site region 150691	1202 bp downstream
Tssr150692	transcription start site region 150692	1169 bp downstream