rs260493474 SNP Detail

Summary

• ID
  rs260493474
• Variation Type
  SNP
• Alleles
  C/G

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

Genome Location and Flanking Sequence

• Location
  Chr6:52221179 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCAGTAAAG GCATGCATCC
  TGGCCCCAGG CTTTCCTGCT TGCCGCCATG ATTTAGCCCT CCTTAACATC TGGGGCGGCT
  GAGGGGTCTT TGTCAGCCTG ACTTCTGATC AGTTCTTGCC TCTTCCGCCA GCCTCCCAGC
  TCTCTCGAGG TGGGAGGTGG CAGAGGAAAC CCCTACCCAG GCCTTCACTC AGTACACACC
  S
  TCAGCATACT GCCAGAGGGC CCTCAGCAGG GTAGGGATGC TAGTTTAGGA AGGGTAGAGG
  AAAGAGAGGC TACCTTAAGC CTCAGGCAGG ATCCATTTGT TCACCCTCAC CTTTAAGAAA
  CACACACACA CACACACACA CACACACACA CACACACACA CACACACACA CACAACTTTT
  GACTGATTTA AAAACAATTG                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss368309155	MGP_WTSI_6_52194198	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs260493474					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	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
ss368309155	MGP_WTSI_6_52194198	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52221179 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17436	CpG island 17436	655 bp proximal
Gm56036	predicted gene, 56036	1810 bp upstream
Hoxa11	homeobox A11	within coordinates
Hoxa11os	homeobox A11, opposite strand	834 bp upstream
Rr379359	regulatory region 379359	62 bp downstream
Tssr1847	transcription start site region 1847	1725 bp upstream
Tssr56517	transcription start site region 56517	802 bp upstream
Tssr56518	transcription start site region 56518	825 bp upstream
Tssr56519	transcription start site region 56519	1766 bp upstream
Tssr56520	transcription start site region 56520	1796 bp upstream
Tssr61029	transcription start site region 61029	1549 bp downstream
Tssr61030	transcription start site region 61030	1565 bp downstream
Tssr61031	transcription start site region 61031	1597 bp downstream