rs227431853 SNP Detail

Summary

• ID
  rs227431853
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:7845426 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGGGCCTCCG CGCGCCCGGC
  GCCCGCCAGC TGTGTGCACT CAGGTGCGGG CACCTTCCGG CCGCAACAGT CCCGAGTGCC
  CGCCGCCGTT GGACCGTCAG CTTTGTCTGG AGCTGGTCGG TTATGGTTGG AACTTTCCCT
  GCCCTTCGTT GACTGAGTGA ACCAGCCAGG TGTGTTGGGG GCTTGCTACG CGCAGGATTT
  W
  AAAAAAAAAT GTTTTTTGTT TTTTCTTTTT CCTTTGGTAA CAAAGTGTGA TGGCTTTCCT
  AGATGTTGGC TAGTTAAACA AAGTGCTTTG ACTTTAGATA GATACTCTTC TAAATTAACT
  AATTTAAGAG TGAGGATCGG GGATTAATGC TTTTGAGCTC TGTCCACACT TCTTACTAGT
  GGCGTGGGAC TTAGAATATT                                            
  
  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	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	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss367306445	MGP_WTSI_6_7795426	EVA_MGPV3	EVA_MGPV3	f	SNP	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	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	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs227431853					SNP	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A

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
ss367306445	MGP_WTSI_6_7795426	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:7845426 () rs orientation: forward

Symbol	Name	Function Class
C1galt1	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	Intron
Cpgi17149	CpG island 17149	3 bp distal
Rr399558	regulatory region 399558	701 bp downstream
Rr399559	regulatory region 399559	1360 bp upstream
Rr626324	regulatory region 626324	574 bp distal
Rr626325	regulatory region 626325	849 bp distal
Rr626326	regulatory region 626326	within coordinates
Rr626327	regulatory region 626327	1375 bp proximal
Tssr54889	transcription start site region 54889	749 bp downstream
Tssr54890	transcription start site region 54890	623 bp downstream
Tssr54891	transcription start site region 54891	567 bp downstream
Tssr54892	transcription start site region 54892	127 bp downstream
Tssr54893	transcription start site region 54893	97 bp downstream
Tssr54894	transcription start site region 54894	1551 bp upstream