rs218259377 SNP Detail

Summary

• ID
  rs218259377
• Variation Type
  SNP
• Alleles
  G/T

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

Genome Location and Flanking Sequence

• Location
  Chr6:7846644 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGAAAATTG TGTTATTCAG
  CTTAACTATA AACTCATGAT AATATAAAGT CAAATCTTTG GTGAAAGTAG TGGTTGGAAT
  TTTGTTGCAA TTTATTTATG AATCAAATGT GAATTGAAAT TGTTACCTTA ATGCTCCTGT
  TTACCTATTA CATTCAAAAG TTGGCTTTTC GGTACAGATA TTTTAAAAGG ACTTTGAGAT
  K
  TTAACAACTA GCTTGAAATA AAAGAAAGAT ACATGTTTTT AATTACCAAA TCTGGTGGGA
  CTAAGGTCTT TTTAAAAATT AAAAATTTAA ATTAACATGC CAAGTGGTGA GATTCATATA
  TACGTTGGTC ATTATACTTT GGTTTTATTC GCTTAAAGAA AACAAGACTT GCTGCATAAA
  ATGTGAAGTT GGCCTTTTAT                                            
  
  K = G/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	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
ss367306476	MGP_WTSI_6_7796644	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	T	T	G	T	T	T	T	T	T	T	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	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
rs218259377					SNP	G	G	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	T	T	G	T	T	T	T	T	T	T	T	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
ss367306476	MGP_WTSI_6_7796644	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:7846644 () rs orientation: forward

Symbol	Name	Function Class
C1galt1	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	Intron
Cpgi17149	CpG island 17149	1221 bp distal
Rr399558	regulatory region 399558	1919 bp downstream
Rr399559	regulatory region 399559	142 bp upstream
Rr626324	regulatory region 626324	1792 bp distal
Rr626326	regulatory region 626326	426 bp distal
Rr626327	regulatory region 626327	157 bp proximal
Rr626328	regulatory region 626328	913 bp proximal
Tssr54889	transcription start site region 54889	1967 bp downstream
Tssr54890	transcription start site region 54890	1841 bp downstream
Tssr54891	transcription start site region 54891	1785 bp downstream
Tssr54892	transcription start site region 54892	1345 bp downstream
Tssr54893	transcription start site region 54893	1315 bp downstream
Tssr54894	transcription start site region 54894	333 bp upstream