rs258017543 SNP Detail

Summary

• ID
  rs258017543
• Variation Type
  SNP
• Alleles
  G

• 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
  Chr6:99003559 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATCTTGATTT GCTTTACTGA
  GTGATGAATC TGAAATATCC AAGATATCCT GCTAGCCTCG TAAGCAGCAA TAACAGCAAC
  ACACATCAAA CCTTGAAGTG GAATCTCAAG CTGATTCTGC TCGAGAACTC TGGTATTAAC
  AGGCGACTTT ATAACACTTC ACCGCATACA CCTCCTATGA CTCTCTCTCT CTCTCTCTGT
  G
  TATGTATGTG TATATATATA TATATAAATA TGTATATATA TATATATATA TATATATATA
  TATATATGTG TGTATATATA TATATATCTT CATGGAAAGT ATCTCACAAA CAAACAAAGC
  AAAAGGGACC ACCTCGGAAA TAAAAAAGTC ACTTGCATCT TTAACTGGGA AAAAAAAAAA
  ATGAAATCGT CTTTTTACCC                                            
  
  G = G
  

  
  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	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/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SM/J	ST/bJ	WSB/EiJ	ZALENDE/EiJ
ss369362180	MGP_WTSI_6_98976592	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	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/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SM/J	ST/bJ	WSB/EiJ	ZALENDE/EiJ
rs258017543					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G

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
ss369362180	MGP_WTSI_6_98976592	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:99003559 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Foxp1	forkhead box P1			Intron
				Noncoding-Transcript-Variant
Rr399785	regulatory region 399785			178 bp upstream
Rr635322	regulatory region 635322			1423 bp distal
Rr635323	regulatory region 635323			19 bp distal
Rr635324	regulatory region 635324			146 bp proximal
Rr635325	regulatory region 635325			1650 bp proximal
Tssr62263	transcription start site region 62263			1383 bp upstream
Tssr62264	transcription start site region 62264			1597 bp downstream
Tssr62265	transcription start site region 62265			1653 bp downstream
Tssr62266	transcription start site region 62266			1836 bp downstream