rs254465396 SNP Detail

Summary

• ID
  rs254465396
• 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
  Chr6:54969132 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAAAGGTGTG GCCAGTTTCC
  AGAGCAGGGA TGGCCCTCTC CTGTAATGCT GGTTGTGTAT ACACACACAC ACACACACAC
  ACACACACAC ACACACACAC ACACACACAC ACACACACAG TAGTCCACCT GTTTACTCAA
  TCTTTCAGGT GAATCCATGA GCTCTCTAAC AGCCTTCCAA CACCCCTCCC CATTCTCCTT
  Y
  CTGAAATCAG CTGGTTTCTG TTGCCTGAAA TCAAGAATTG ACAAGGTTAT CAAAGTTGGC
  TAAAATTATT AAGGGCCCTA CACACAATCA GATTGTACAC CAGAAAGGTC CTCCAAATAG
  CTAGGCTGCT CAGTCATCCT TGTAACCCCA GCACTGAGTG CCAGAAGAAT ACGTATTAAA
  GAGGAAATGA ACTATGGTCA                                            
  
  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
ss368375006	MGP_WTSI_6_54942141	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	C	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	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
rs254465396					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	C	T	T	T	T	T	C	T	T	T	T	T	T	C	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
ss368375006	MGP_WTSI_6_54942141	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:54969132 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17470	CpG island 17470	292 bp proximal
Ggct	gamma-glutamyl cyclotransferase	within coordinates
Rr366742	regulatory region 366742	935 bp upstream
Rr630884	regulatory region 630884	489 bp proximal
Rr630885	regulatory region 630885	640 bp proximal
Rr630886	regulatory region 630886	793 bp proximal
Tssr61105	transcription start site region 61105	711 bp downstream
Tssr61106	transcription start site region 61106	735 bp downstream
Tssr61107	transcription start site region 61107	763 bp downstream
Tssr61108	transcription start site region 61108	778 bp downstream
Tssr61109	transcription start site region 61109	799 bp downstream