rs224599404 SNP Detail

Summary

• ID
  rs224599404
• 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
  Chr12:117497721 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGCAGCGCG TCCCGCGCCT
  GAGCCGCAGT CGCGCCCTCT CGCTGCCTGG CGAAGGCGCG GAGGCGAGCG CGGAGGAGAG
  CAGCCGCGGG CGCCGCCGCA ACCGTCAGGG CATCAGGATG GCGGTGGGCT CTGTCAAGAT
  GCAGCCGCCT TGCGAGAGTC CGGCCCTGGC CTCGGCGGCC CCGGCCGATG GCCCTCTGCG
  Y
  CGCAGCCCGA GCGCCCGGGA GCCGGAGCGC GAGCCGCCCG CCGCGTCTCT GCGGCCGCGC
  CTCAGGGACC TGCCTGCGCT GCTGCGGAGC GGGCTCACGC TGCGGAGGAA GCGGAGCGCC
  GCCGGCGCCC GGGTGAGTGG CCCGGGCGCG CACGTGGAGC CCTCGACTGC CCCGCGGGCC
  CGCCACGCCG TGGCTGGAAG                                            
  
  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	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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	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
ss387505958	MGP_WTSI_12_118772574	EVA_MGPV3	EVA_MGPV3	f	SNP	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	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	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
rs224599404					SNP	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	C	C	C	C	C	C	C	C	C	C	T	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
ss387505958	MGP_WTSI_12_118772574	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:117497721 () rs orientation: forward

Symbol	Name	Function Class
2900082C11Rik	RIKEN cDNA 2900082C11 gene	1808 bp downstream
Cpgi5227	CpG island 5227	within coordinates
Gm60307	predicted gene, 60307	963 bp upstream
Rapgef5	Rap guanine nucleotide exchange factor (GEF) 5	within coordinates
Rr474129	regulatory region 474129	within coordinates
Rr474130	regulatory region 474130	151 bp distal
Rr474131	regulatory region 474131	587 bp proximal
Tssr115537	transcription start site region 115537	191 bp downstream
Tssr115538	transcription start site region 115538	159 bp downstream
Tssr115539	transcription start site region 115539	145 bp downstream