rs52031980 SNP Detail

Summary

• ID
  rs52031980
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:85921645 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTCTATGCG CGCATTAGGG
  ACATTTTTGG ACTTTTCTCT CGGACGCCCC GGATCTCTTG CCTTTGCCTT TCTTTGGTTC
  CCCTCCCTCC TCTTTTGGCC TCCTCTACCT CCTCCCCCAC CTCACCACTA CCCTCGGTTG
  CAGAACCACT CCCCACTCCT CTGCCCGGCT TTGTGCCACT GGCGCGCATC CCTCCAAGCA
  S
  TCTCTCGCGT CTCCCACAAA GAGGATGGAG AGCTCTTTTT CCTCTGTGAC CCCTACACCA
  AGACCTCTGA TCCAGGGGTC CCTCGACCCC TTTCCTGCAG GTTCAAATCT TGAGGTTCTG
  CTGCGCGCTG TCTCCTTCCC CCCTCTTGGG ACGCAGAGGC TCAGTGCCAG AAGCTGAGAG
  TAATCATTGG TGATTGGAAC                                            
  
  S = C/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	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
ss62953705	NES17409302	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G
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
rs52031980					SNP	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G

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
ss62953705	NES17409302	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85921645 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9587	CpG island 9587	1145 bp distal
Cpgi9588	CpG island 9588	138 bp distal
Cpgi9589	CpG island 9589	462 bp proximal
Gm55782	predicted gene, 55782	613 bp downstream
Gm55783	predicted gene, 55783	445 bp upstream
Gm55784	predicted gene, 55784	743 bp upstream
Rr340291	regulatory region 340291	within coordinates
Six3	sine oculis-related homeobox 3	within coordinates
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr146084	transcription start site region 146084	979 bp downstream
Tssr146085	transcription start site region 146085	732 bp downstream
Tssr149705	transcription start site region 149705	1840 bp upstream
Tssr149706	transcription start site region 149706	1153 bp upstream
Tssr149707	transcription start site region 149707	585 bp downstream
Tssr149708	transcription start site region 149708	783 bp downstream
Tssr149709	transcription start site region 149709	830 bp downstream
Tssr149710	transcription start site region 149710	919 bp downstream
Tssr149711	transcription start site region 149711	947 bp downstream
Tssr149712	transcription start site region 149712	1237 bp downstream