rs259003405 SNP Detail

Summary

• ID
  rs259003405
• 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
  Chr5:57876178 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGTCAGGCG GGGAAGGCTG
  CAGGTTTGTT CTAGTCCGCT ACCAGGCTCC GCCGCCCTCT TGCAGAAGCG GTTCCGGCCC
  CTTCCCAGGG CTTGGAGACT GGATCTCAGT ATCTTCCCAC TGCGGGGATG ACTTTGTGGG
  GGCACCGAGC CCGTGGCGCG CAGTGTCCCG TGAACTGTGA GTACTGCGAG TAAACGGTGG
  Y
  CGGCGAGCGG GCGATTAGCA CCCATTGCAT GAATTATGAA ACAATAACTT TCGGAAGAAG
  CAGGAGGAGA AAAAAAGAAG CATCTCTAGC TGCCCCCCTC CCATCGGCCG ACTCTACGCG
  CTACTCTGGC CCCCTCCCTC CCCTCCCTCT CGTTTCTTCC TTTCCCGGAG AGGAGGACCG
  AGGGGAGGGC AGGCGGCCAG                                            
  
  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
ss365063220	MGP_WTSI_5_58110075	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	C	C	C	C	C	C	C	C	C	C	C	C	T	C
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
rs259003405					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	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss365063220	MGP_WTSI_5_58110075	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:57876178 () rs orientation: forward

Symbol	Name	Function Class
4932441J04Rik	RIKEN cDNA 4932441J04 gene	917 bp upstream
Cpgi15875	CpG island 15875	within coordinates
Pcdh7	protocadherin 7	within coordinates
Rr611760	regulatory region 611760	806 bp distal
Rr611761	regulatory region 611761	within coordinates
Tssr1483	transcription start site region 1483	686 bp downstream
Tssr46284	transcription start site region 46284	1897 bp downstream
Tssr46285	transcription start site region 46285	1599 bp downstream
Tssr46286	transcription start site region 46286	1480 bp downstream
Tssr46287	transcription start site region 46287	1311 bp downstream
Tssr46288	transcription start site region 46288	1281 bp downstream
Tssr46289	transcription start site region 46289	1163 bp downstream
Tssr46290	transcription start site region 46290	1065 bp downstream
Tssr46291	transcription start site region 46291	732 bp downstream
Tssr46292	transcription start site region 46292	529 bp downstream
Tssr46293	transcription start site region 46293	225 bp upstream
Tssr51039	transcription start site region 51039	122 bp downstream