rs39772798 SNP Detail

Summary

• ID
  rs39772798
• Variation Type
  SNP
• Alleles
  C/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
  Chr6:113052654 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTTTCATGA GTCATCAGAC
  TTCTAAGATC AGGAAAGGGA AAATGCCAAT GCTCTGTCTA GGGGTTGGAT AAGCCAGTAT
  AATAAATGAA AATGGGGCTA AAATGAGTGT TCTAAAATAC CTTTTGATAA GGCTGCAGAA
  GGAGCGGGAG AAATGGATAT GAAGTACTGG GCTCTTTAAA AATGATTAAA ATTCTGCTTA
  Y
  ATAGTCTAAC TCGCGACACT GTAATTTCAT ACTGTAGTAA GGATCTCAAG CAGGAGAGTA
  TAAAACTCGG GTGAGCATGT CTTTAATCTA CCTCGATGGA AAATACTCCG AGGCGGATCA
  CAAGCAATAA TAACCTGTAG TTTTGCTGCA TAAAACCCCA GATGACTACC TATCCTCCCA
  TTTTCCTTAT TTGCCCCTAT                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss51843816	NES14766056	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C		T	C	C	T		C
ss321909778	CHEV_6_113025687	CHEVERUD	SCREENING_POP	f	SNP											T					C
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs39772798					SNP	C	C	C	C	C	C	T	C	C	C	T	T	C	C	T	C	C

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
ss51843816	NES14766056	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:113052654 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17829	CpG island 17829	368 bp proximal
Gt(ROSA)26Sor	gene trap ROSA 26, Philippe Soriano	within coordinates
Rr379953	regulatory region 379953	within coordinates
Rr407325	regulatory region 407325	124 bp proximal
Rr636448	regulatory region 636448	1051 bp distal
Rr636449	regulatory region 636449	within coordinates
Rr636450	regulatory region 636450	695 bp proximal
Rr636451	regulatory region 636451	1609 bp proximal
Rr636452	regulatory region 636452	1621 bp proximal
Rr636453	regulatory region 636453	1957 bp proximal
Setd5	SET domain containing 5	1672 bp upstream
Tssr58166	transcription start site region 58166	1661 bp upstream
Tssr58167	transcription start site region 58167	1694 bp upstream
Tssr58168	transcription start site region 58168	1762 bp upstream
Tssr58169	transcription start site region 58169	1874 bp upstream
Tssr58170	transcription start site region 58170	1938 bp upstream
Tssr62428	transcription start site region 62428	624 bp downstream
Tssr62429	transcription start site region 62429	1488 bp downstream
Tssr62430	transcription start site region 62430	1544 bp downstream