rs45842002 SNP Detail

Summary

• ID
  rs45842002
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr1:79416222 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AGAAC ATTTCCAAAA TAAACAAATG
  Y
  TTTCTTCAAG AAACTGTACC CATAA                                      
  
  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/J	DBA/2J	LG/J	MSM/Ms	SM/J
ss144776195	ENSMUSSNP5777859	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	C		C
ss319807655	CHEV_1_79435080	CHEVERUD	SCREENING_POP	f	SNP			C		T
SNP Consensus Information
SNP					Consensus Type	A/J	DBA/2J	LG/J	MSM/Ms	SM/J
rs45842002					SNP	T	C	C	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:79416222 () rs orientation: forward

Symbol	Name	Function Class
Cpgi462	CpG island 462	1478 bp proximal
Rr17631	regulatory region 17631	1379 bp proximal
Rr29696	regulatory region 29696	178 bp proximal
Rr29697	regulatory region 29697	978 bp proximal
Scg2	secretogranin II	within coordinates
Tssr12435	transcription start site region 12435	1498 bp downstream
Tssr12436	transcription start site region 12436	1510 bp downstream
Tssr12437	transcription start site region 12437	1534 bp downstream
Tssr12438	transcription start site region 12438	1598 bp downstream