rs259174465 SNP Detail

Summary

• ID
  rs259174465
• 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
  Chr3:90420302 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTGTCCTGG AATTAGCTCA
  AGCAGATCCT TAGCTTCTGG GCAGTCGTGT CTCTGTGTGC TGAGATTACT GGTCTGAGTT
  CCCCCTCTCT CTTCAGCATG CCATTTTGGC TTCTTTGGGG GACGGGGGTG GGGGGGGCGG
  TATGGCGGTA TTCTTAACAT GACTGCCTGT TCTAGTCCTT TTCTCTGCAA AATCATCCCT
  Y
  TCCATCAGGT AGGTAGAAGG AAGGGAGAAG AGATGTCTGA GGCTTTTCCT TGGAGACGAG
  CTTTGTAGGT GTTCTTCCTG ATGCTGTCCA TTGCTGCCAC GGGCCAGCGT TGGTTCGGTA
  GCTCCAGTGG GAGCAGGCTA GGGCTGGTTT GTGTTTGATA AAGGGCTGAA TGTATGAGGT
  CATTTGAGCT CAAGGGCTGG                                            
  
  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
ss358833679	MGP_WTSI_3_90316917	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T
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
rs259174465					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T

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
ss358833679	MGP_WTSI_3_90316917	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90420302 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13466	CpG island 13466	1189 bp proximal
Gm56783	predicted gene, 56783	1293 bp downstream
Rr375350	regulatory region 375350	within coordinates
Rr580384	regulatory region 580384	67 bp proximal
Rr580385	regulatory region 580385	966 bp proximal
Rr580386	regulatory region 580386	1083 bp proximal
Rr580387	regulatory region 580387	1273 bp proximal
Rr580388	regulatory region 580388	1383 bp proximal
Rr580389	regulatory region 580389	1387 bp proximal
Rr580390	regulatory region 580390	1451 bp proximal
S100a1	S100 calcium binding protein A1	Intron
S100a13	S100 calcium binding protein A13	1357 bp upstream
Tssr30209	transcription start site region 30209	1923 bp upstream
Tssr30210	transcription start site region 30210	1989 bp upstream
Tssr34240	transcription start site region 34240	1821 bp upstream
Tssr34241	transcription start site region 34241	929 bp upstream
Tssr34242	transcription start site region 34242	1255 bp downstream
Tssr34243	transcription start site region 34243	1361 bp downstream
Tssr34244	transcription start site region 34244	1375 bp downstream
Tssr34245	transcription start site region 34245	1410 bp downstream