rs260407059 SNP Detail

Summary

• ID
  rs260407059
• 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
  Chr5:53748323 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCGGCGGCA GGCGGCGGGC
  CGGGGCCGCG CGGCGCGCCG GGGCCTCGGG AGGCGGCGCG GGGCGGCGAC GCGATGGCGC
  GGGCCGGTGC GGGGCTCGCC CGTGCGCCGC GGTGGAGCGG GCTCCGGGCG CGTGAGGGCG
  GGCGGTGGCG AGGCCGGCGG CTGCGGGCGG AGTGCGGCCG GCGCGCGGGG CCGTAGGCAC
  Y
  GTGCCCGGCG CGCGCCCCCC TCGGCGGGCC TGGCGGGGAT CCCGGCGCAG CTTTGTTCCC
  CGTGCGTGGC CCGCGTCGCC TGTCCTCCCA GCCGCTGCCC TGGGCGCCGG AGCGCTTTGT
  CTGTGTGCGC TGCCCCCCGC GATTCTGCCC CCAGCCCTTT GTTTCGCCGC CTTAGGCTCT
  CTGTGGGAGC CGCTGCGCGC                                            
  
  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	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	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	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
ss364963861	MGP_WTSI_5_53982220	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	T	C	C	C	C
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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	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
rs260407059					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	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
ss364963861	MGP_WTSI_5_53982220	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:53748323 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15869	CpG island 15869	within coordinates
Rbpj	recombination signal binding protein for immunoglobulin kappa J region	within coordinates
Rr367840	regulatory region 367840	1895 bp downstream
Tssr46226	transcription start site region 46226	1537 bp downstream
Tssr46227	transcription start site region 46227	630 bp downstream
Tssr46228	transcription start site region 46228	604 bp downstream
Tssr46229	transcription start site region 46229	548 bp downstream
Tssr46230	transcription start site region 46230	452 bp downstream
Tssr46231	transcription start site region 46231	313 bp downstream
Tssr46232	transcription start site region 46232	278 bp downstream
Tssr46233	transcription start site region 46233	259 bp downstream
Tssr46234	transcription start site region 46234	78 bp upstream
Tssr46235	transcription start site region 46235	252 bp upstream
Tssr46236	transcription start site region 46236	267 bp upstream
Tssr46237	transcription start site region 46237	419 bp upstream
Tssr46238	transcription start site region 46238	485 bp upstream
Tssr46239	transcription start site region 46239	548 bp upstream
Tssr46240	transcription start site region 46240	615 bp upstream
Tssr46241	transcription start site region 46241	936 bp upstream
Tssr51023	transcription start site region 51023	1716 bp upstream
Tssr51024	transcription start site region 51024	789 bp upstream
Tssr51025	transcription start site region 51025	392 bp upstream