rs258785727 SNP Detail

Summary

• ID
  rs258785727
• 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
  Chr1:53335847 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTATAAATAC AAATCACCAA
  GGTTAAAAAA AAAAAAGTAC TTTCAAAGAT GATTTAGAAA GAGAATGGAT TAATCAAATC
  TTTTTTTCCT CCCCTTCCTC ATAGAGATGA ACTTCTGGTA TTCACATCTC TTCAGGATGT
  ACACTGTCTT CATTGGGAAT AACCACAAAT TAATACCTTT TTGTGTGAGA CAACGCACAG
  Y
  GCTACAAGCC GCTACACTCT CTAGCAAGAC AAAACTTTCC CACCTTGAAC CCCAAGGGTC
  TGAGCTCCAA CTACTGCCGA GCCAGCCCAG AGGCTTGAAA CGCGTGCGCG CGAGCCCCGC
  AAATCCGCAC CTAGCCCCGG GAGGCGCCTT CAGCCTCCCC GAGCATCACC GGGCACGCTC
  GTTCGCGGTG ACACTACCTT                                            
  
  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	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
ss349656134	MGP_WTSI_1_53353532	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	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
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
rs258785727					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	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

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
ss349656134	MGP_WTSI_1_53353532	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:53335847 () rs orientation: forward

Symbol	Name	Function Class
Cpgi250	CpG island 250	within coordinates
Gm28778	predicted gene 28778	423 bp upstream
Ormdl1	ORM1-like 1 (S. cerevisiae)	407 bp upstream
Pms1	PMS1 homolog 1, mismatch repair system component	within coordinates
Rr410945	regulatory region 410945	within coordinates
Rr410946	regulatory region 410946	61 bp proximal
Rr410947	regulatory region 410947	320 bp proximal
Rr410948	regulatory region 410948	434 bp proximal
Tssr6687	transcription start site region 6687	382 bp upstream
Tssr6688	transcription start site region 6688	408 bp upstream
Tssr6689	transcription start site region 6689	459 bp upstream
Tssr11646	transcription start site region 11646	270 bp downstream
Tssr11647	transcription start site region 11647	313 bp downstream