rs260560299 SNP Detail

Summary

• ID
  rs260560299
• 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
  Chr4:107223654 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAAAAAAGCT GTTAGCACTA
  CTCACCTAGG TTTTTGATGA GGCCAAAAGT AATCAGAGAG AGGAATTTGA GCCAGTGAGA
  AGTTGTATGT GTGCATGTTT GTGTTTGTAT GTGTGCACAT TTGTGCATGT GGGTGTGGAA
  GCCAGAAGTC TACTTTGTGT GTTGTTCCTC AGGCTCCCTC CACCTTGTTT CTCCCAAGTG
  Y
  CTACAGCTCA GAGTAGGCTT GGCTCACTAG CTATAAGCCT CATAGAGCTC CCTATCTCTG
  CCTGCTCAAC ACCTGCCCAC CTGCCCAGCA CCTGCCCAGC ACCTGCCTAG CACCTGCCTA
  GCACCTGCCC AGCACCTGCC TAGCACCTGC CTAGCACCTG CCCAGCACCT GCCTAGCACC
  TGCCCAGCAC CTGCCTAGCA                                            
  
  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
ss362757870	MGP_WTSI_4_107039062	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
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
rs260560299					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	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
ss362757870	MGP_WTSI_4_107039062	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107223654 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14540	CpG island 14540	1140 bp proximal
Ndc1	NDC1 transmembrane nucleoporin	1590 bp upstream
Rr367664	regulatory region 367664	1130 bp upstream
Rr596979	regulatory region 596979	842 bp proximal
Rr596980	regulatory region 596980	911 bp proximal
Rr596981	regulatory region 596981	1338 bp proximal
Rr596982	regulatory region 596982	1383 bp proximal
Rr596983	regulatory region 596983	1827 bp proximal
Tssr38245	transcription start site region 38245	1272 bp upstream
Tssr38246	transcription start site region 38246	1300 bp upstream
Tssr38247	transcription start site region 38247	1547 bp upstream
Tssr38248	transcription start site region 38248	1582 bp upstream
Tssr38249	transcription start site region 38249	1604 bp upstream
Tssr38250	transcription start site region 38250	1618 bp upstream
Tssr38251	transcription start site region 38251	1864 bp upstream