rs49288122 SNP Detail

Summary

• ID
  rs49288122
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr1:172040905 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GCCGC TCCAGTGTCC TCTCCTCACC
  R
  GGATCTGCTT CCTCTGCAAA GGCGA                                      
  
  R = A/G
  

  
  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	C57BL/6J	DBA/2J	LG/J	SM/J
ss120007489	PARCsnp_1.17823	PARC_SEQ	INBRED	f	SNP		G	A
ss120010401	PARCsnp_1.07468	PARC_SEQ	INBRED	f	SNP		G	A
ss146184083	ENSMUSSNP518791	ENSEMBL	ENSEMBL_Sanger	f	SNP	A		A
ss320123270	CHEV_1_174143469	CHEVERUD	SCREENING_POP	f	SNP				A	A
SNP Consensus Information
SNP					Consensus Type	A/J	C57BL/6J	DBA/2J	LG/J	SM/J
rs49288122					SNP	A	G	A	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:172040905 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Casq1	calsequestrin 1			Coding-Synonymous
				Splice-Site
Gm17224	predicted gene 17224			within coordinates
Rr423487	regulatory region 423487			208 bp proximal
Tssr15175	transcription start site region 15175			1316 bp upstream
Tssr15176	transcription start site region 15176			263 bp upstream
Tssr15177	transcription start site region 15177			209 bp upstream
Tssr15178	transcription start site region 15178			176 bp upstream
Tssr15179	transcription start site region 15179			160 bp upstream
Tssr15180	transcription start site region 15180			31 bp downstream
Tssr15181	transcription start site region 15181			607 bp downstream
Tssr15182	transcription start site region 15182			1702 bp downstream