rs39509797 SNP Detail

Summary

• ID
  rs39509797
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:146887267 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGTGTTTGGC TGTGCAATGA
  ATGGCGTCCT ATCCGCACAA ATTACATTCT ACTGAAACCT TTTCCCTTCC TAGCCTCACA
  TTTTACAAAT GCAAAGAATT CTACTAGTCT AAGCCTTCCT TCATCATCTA GGCTAATGCC
  GGTGCTGTTG AGTTGGTTGG TGCTAAGGAT GTGAGAGTCT GGATTAACAT GTGGGTTAAG
  W
  GGAAAAAATA TTTATTTAAT TCTTTTGTTT ACTCTCCCTC CTGCTCCTGA CCCAGGGAAA
  CACAGGGGCA CTAGAGAGGC CCCAGCAGAC TTTCCCCAGC TCCTTCCTGA GTTAATCACA
  TTTCACACGT CCCTTTTTCT GGCAGATGCG GCACCGGACC TCCCCTTTGT CCGTTTAGTC
  TCCGGATGAA AGTGTGAGGC                                            
  
  W = A/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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss51050472	NES13900885	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	T	A	A	A	T	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs39509797					SNP	A	A	A	A	A	A	T	A	A	A	T	A

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
ss51050472	NES13900885	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:146887267 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13926	CpG island 13926	482 bp proximal
Gm65492	predicted gene, 65492	within coordinates
Rr375882	regulatory region 375882	within coordinates
Rr587132	regulatory region 587132	232 bp distal
Rr587133	regulatory region 587133	within coordinates
Rr587134	regulatory region 587134	1083 bp proximal
Rr587135	regulatory region 587135	1270 bp proximal