rs16805542 SNP Detail

Summary

• ID
  rs16805542
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr7:98306080 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CCAGC TTCGCGCGCC TATCCTCCGG
  Y
  CTTTCCCAGC CAATCAGCTG CTCTT                                      
  
  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	129/Sv	129S1/SvImJ	129X1/SvJ	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	FVB/NJ	KK/HlJ	LP/J	MOLF	MOLF/EiJ	MRL/MpJ	NOD/ShiLtJ	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ	WSB/EiJ
ss24760400	Emsy_JC10354_5	ROCHEBIO	RPAMM	f	SNP	T			T	T	T	T	T	T		T	C	T	C	C	T			T	C		T		T	T		C		T	C
ss46134278	mCV24171245	ABI	CRAMUS_MOUSE	f	SNP		T	T		T										C
ss61040535	NES16091016	PERLEGEN	MM_PANEL2	f	SNP		T			T	T		T		T		C		C	C		T	T			C		T			T		C			T
ss145478294	ENSMUSSNP1237249	ENSEMBL	ENSEMBL_Sanger	f	SNP			T		T										C
SNP Consensus Information
SNP					Consensus Type	129/Sv	129S1/SvImJ	129X1/SvJ	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	FVB/NJ	KK/HlJ	LP/J	MOLF	MOLF/EiJ	MRL/MpJ	NOD/ShiLtJ	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ	WSB/EiJ
rs16805542					SNP	T	T	T	T	T	T	T	T	T	T	T	C	T	C	C	T	T	T	T	C	C	T	T	T	T	T	C	C	T	C	T

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
ss61040535	NES16091016	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr7:98306080 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4930558N01Rik	RIKEN cDNA 4930558N01 gene			within coordinates
Emsy	EMSY, BRCA2-interacting transcriptional repressor			mRNA-UTR
				Noncoding-Transcript-Variant
Rr368380	regulatory region 368380			within coordinates
Rr651647	regulatory region 651647			712 bp distal
Rr651648	regulatory region 651648			338 bp distal
Rr651649	regulatory region 651649			530 bp distal
Rr651650	regulatory region 651650			within coordinates
Rr651651	regulatory region 651651			242 bp distal
Rr651652	regulatory region 651652			57 bp proximal
Tssr68028	transcription start site region 68028			1020 bp downstream
Tssr68029	transcription start site region 68029			714 bp downstream
Tssr68030	transcription start site region 68030			672 bp downstream
Tssr68031	transcription start site region 68031			28 bp upstream
Tssr73641	transcription start site region 73641			349 bp upstream
Tssr73642	transcription start site region 73642			273 bp upstream
Tssr73643	transcription start site region 73643			60 bp upstream