rs260196539 SNP Detail

Summary

• ID
  rs260196539
• Variation Type
  SNP
• Alleles
  A/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
  Chr2:91760532 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GACAGGAAGA CAAAAGGCAC
  TGGTGGGTTA TATCTTGGGC CTGTGGGAGA GGAGGGCTCC GTTCAGGCTC CAGGCGAGGC
  CGGAGGCTCT CTGGCCTCCT GACTTAGTCC TTTCCTTTTC CTTTCTTGGC TGGAAAACAA
  TAACGGAGAT GCATTAGTGC GGTGGGTGAC CTAGCTCGGA CTCACCAGAC AACGCAGACA
  W
  GTCCATCAAG GAGAGAAAAT CCTGCCCCCT AGTGGTGACT GACCAGTTCA CCTGGAAGTG
  GTGGGAAAGG GCAGCCATGT GATATGAAAC CTTTCTTTAT TCGTTCAACT TTTTAACCCT
  CGCGCCCCCC CCCCCCCTTT AAAGACAGAC TCTCAAGTCT CTCAGTCTGT AACCTTGAAC
  TCAAGGCAGT GTTACTGCCT                                            
  
  W = A/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	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
ss354821163	MGP_WTSI_2_91770344	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	A	T	T	A	T	T	T	T	A	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	T	A	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	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
rs260196539					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	A	T	T	T	T	A	T	T	T	T	A	T	T	T	T	T	T	A	T	T	T	T	T	T	T	A	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
ss354821163	MGP_WTSI_2_91770344	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:91760532 () rs orientation: forward

Symbol	Name	Function Class
Chrm4	cholinergic receptor, muscarinic 4	1499 bp downstream
Cpgi11915	CpG island 11915	1424 bp distal
Cpgi11916	CpG island 11916	867 bp proximal
D2Mit1007	DNA segment, Chr 2, Massachusetts Institute of Technology 1007	1682 bp proximal
D2Mit1008	DNA segment, Chr 2, Massachusetts Institute of Technology 1008	1777 bp proximal
Gm39876	predicted gene, 39876	1363 bp upstream
Gm75422	predicted gene, 75422	within coordinates
Mdk	midkine	within coordinates
Rr560807	regulatory region 560807	1758 bp distal
Rr560808	regulatory region 560808	783 bp distal
Rr560809	regulatory region 560809	19 bp proximal
Rr560810	regulatory region 560810	1491 bp proximal
Tssr18929	transcription start site region 18929	511 bp downstream
Tssr25211	transcription start site region 25211	297 bp upstream
Tssr25212	transcription start site region 25212	283 bp upstream
Tssr25213	transcription start site region 25213	732 bp downstream
Tssr25214	transcription start site region 25214	1264 bp downstream
Tssr25215	transcription start site region 25215	1474 bp downstream
Tssr25216	transcription start site region 25216	1488 bp downstream
Tssr25217	transcription start site region 25217	1509 bp downstream
Tssr25218	transcription start site region 25218	1541 bp downstream
Tssr25219	transcription start site region 25219	1587 bp downstream
Tssr25220	transcription start site region 25220	1768 bp downstream
Tssr25221	transcription start site region 25221	1807 bp downstream