rs258597460 SNP Detail

Summary

• ID
  rs258597460
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr1:154935562 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCCTGCCCA AAACACCTCC
  TGCCAGTAAC TTCCCCATTT CTATAAATAG CGCCCCCACC CTCCCAGCCA GCGTCACTCT
  CCCATCCTCC CACTCTCCAC GGCCTGGCCT ACCGATGTCT CCTGTCTCCC GGATGTGTCC
  TCGCACACCC TTCCACAGCG CCCTCCTCTT TGGTCCTGAT GCTTCCTTTC CTCCGATGGT
  Y
  CCCCTCACAG CCACTGACAG GGCAGCGTCA CACAAGCACC TTCGTTCTTC CGCACTCTCC
  TCGGATCTCA CCCTCCCTTA GAGAAGAAAA CAGAACCACA AAGTAGCCCC TAAAGGACCT
  GAATTTCCAA GCCTCTCTCC AGACTCTGTG TTCTGCCCAC ATTCTGAAAC GTGTGTGTGT
  GTGTGTGTGT GTGTGTGTGT                                            
  
  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	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	CBA/J	CE/J	FVB/NJ	I/LnJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	RF/J	RIIIS/J	SEA/GnJ	SPRET/EiJ	ST/bJ
ss352009619	MGP_WTSI_1_156906946	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	C	T
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	CBA/J	CE/J	FVB/NJ	I/LnJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	RF/J	RIIIS/J	SEA/GnJ	SPRET/EiJ	ST/bJ
rs258597460					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	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
ss352009619	MGP_WTSI_1_156906946	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:154935562 () rs orientation: forward

Symbol	Name	Function Class
Cpgi880	CpG island 880	within coordinates
Gm41980	predicted gene, 41980	within coordinates
Gm51651	predicted gene, 51651	within coordinates
Gm70900	predicted gene, 70900	224 bp upstream
Rr396410	regulatory region 396410	within coordinates
Tssr248	transcription start site region 248	286 bp upstream
Tssr9521	transcription start site region 9521	106 bp downstream
Tssr9522	transcription start site region 9522	128 bp upstream
Tssr14331	transcription start site region 14331	271 bp upstream
Tssr14332	transcription start site region 14332	259 bp upstream
Tssr14333	transcription start site region 14333	241 bp upstream