rs258079200 SNP Detail

Summary

• ID
  rs258079200
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr4:117693565 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGGAAAAAA TCCACGCCCT
  GCCACTCGAG CCTTCACTCT AGCCTTCCTT CTGGGCATGC TTGCGGCGAG TGCGGGCGGC
  CACAGGTGAG GCCTGGTTTC CCGCAGCTCC CGAGCGCCTG CTCCCAGCCT GTACCCCGCA
  GCAGGCAGCC ACACACGGGC CGGAGCTGAG GCCAGCGAGC CGGGAGGGGG CTTGCCCGCA
  K
  ACCCGGGAGG GGCCGAGGAC GGGCGGGGGC GGGGCAAGGG GGCGGAGACC TCGGCACCCG
  GGTACTTTTC CACCGCGGGG GGCGGGGCGG CATCCTCCAC GCCAGCTGAG AGGCGCACAC
  GTGGTGGCTG ATGTAACGCC CGCCCCCCAA CACACCTTGC ACACTGATTA AAGCGAACCG
  GTCTCGTTTC GAGGAAGTGG                                            
  
  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	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	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
ss362978376	MGP_WTSI_4_117508973	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G
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	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
rs258079200					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G

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
ss362978376	MGP_WTSI_4_117508973	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:117693565 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14668	CpG island 14668	within coordinates
Gm17114	predicted gene 17114	within coordinates
Rr598224	regulatory region 598224	1852 bp distal
Rr598225	regulatory region 598225	961 bp distal
Rr598226	regulatory region 598226	within coordinates
Slc6a9	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	within coordinates
Tssr38631	transcription start site region 38631	1093 bp downstream
Tssr38632	transcription start site region 38632	1067 bp downstream
Tssr38633	transcription start site region 38633	1035 bp downstream
Tssr38634	transcription start site region 38634	1019 bp downstream
Tssr38635	transcription start site region 38635	940 bp downstream
Tssr42994	transcription start site region 42994	521 bp upstream