rs260586599 SNP Detail

Summary

• ID
  rs260586599
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:45334089 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGGAGACCG GGGTTCTGTA
  CGTAAACGAG AAGATAGATC GCGAGCAAAT CTGTAAGCAG AGCCCCTCTT GTGTCCTGCA
  CCTGGAGGTC TTTCTGGAGA ACCCGCTGGA GCTGTTCCGA GTGGAGATCG AAGTGCTGGA
  CATCAATGAC AACCCTCCCT CCTTCCCAGA GCCCGACCTG ACAGTGGAGA TCTCAGAGAG
  Y
  GCCACGCCAG GCACCCGCTT TCCCTTGGAG AGCGCCTTCG ACCCAGACGT GGGGACCAAC
  TCCTTGCGAG ACTACGAGAT AACCCCAAAT AGCTACTTCT CGCTAGACGT ACAGACCCAG
  GGAGATGGCA ACCGATTCGC CGAACTGGTC CTGGAGAAGC CACTGGACCG AGAACAGCAA
  GCGGTGCACC GCTACGTGCT                                            
  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss357774844	MGP_WTSI_3_45183576	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	T	T	C	C	C	T	T	C	C	C	C	T	C	C	C	C	C	C	C	C	T	C	C	C	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs260586599					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	T	T	C	C	C	T	T	C	C	C	C	T	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
ss357774844	MGP_WTSI_3_45183576	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:45334089 () rs orientation: forward

Symbol	Name	Function Class
2610316D01Rik	RIKEN cDNA 2610316D01 gene	1394 bp upstream
Cpgi13123	CpG island 13123	1040 bp distal
Cpgi13124	CpG island 13124	within coordinates
Pcdh10	protocadherin 10	Coding-Synonymous
Rr576052	regulatory region 576052	1217 bp distal
Rr576053	regulatory region 576053	1280 bp distal
Rr576054	regulatory region 576054	840 bp distal
Rr576055	regulatory region 576055	339 bp distal
Rr576056	regulatory region 576056	1538 bp proximal
Tssr29009	transcription start site region 29009	1241 bp downstream
Tssr33088	transcription start site region 33088	1406 bp upstream
Tssr33089	transcription start site region 33089	1392 bp upstream