rs259417555 SNP Detail

Summary

• ID
  rs259417555
• 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
  Chr1:79415771 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTACAGGGAG AACATAAGTT
  TACTTAACTA GTCTATTTCT AAGCTTTTGA GTGTTCAGAT TCAGTTTGTC TTATGTCTCT
  GCCTATTTTT GTAGGGACCT GTGAAATCTT AAATGACTCA CACACACTGT TAGAAAATCT
  GAAAATAACC ACTATGTAAC TCCCAATTTA GATAAACACA GACGATGTGT TGAATTCTTC
  Y
  TACTTAAAAA AGAAAAGAAA AGAAAAAAAG GTAAAAAAAC CTTCATTCAT TTTTTTCTCC
  AATATTTTTA AAATCTCACA GATGGATTAG TAAGAGGAAT CACTTGTACA CTTCCTGCTT
  GGCATTGCTG ATAATTGGAG AAGCTATTTC AATCCTTGAA ATTTCTTTTG TAAACAAATG
  CATGTAAATA AATCTATAAG                                            
  
  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	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	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss350232838	MGP_WTSI_1_79434629	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
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	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs259417555					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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

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
ss350232838	MGP_WTSI_1_79434629	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:79415771 () rs orientation: forward

Symbol	Name	Function Class
Cpgi462	CpG island 462	1929 bp proximal
Rr17631	regulatory region 17631	1830 bp proximal
Rr29696	regulatory region 29696	629 bp proximal
Rr29697	regulatory region 29697	1429 bp proximal
Scg2	secretogranin II	within coordinates
Tssr12433	transcription start site region 12433	1789 bp upstream
Tssr12434	transcription start site region 12434	1706 bp upstream
Tssr12435	transcription start site region 12435	1949 bp downstream
Tssr12436	transcription start site region 12436	1961 bp downstream
Tssr12437	transcription start site region 12437	1985 bp downstream