rs258388729 SNP Detail

Summary

• ID
  rs258388729
• 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
  Chr4:137523774 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTCTGTTCCG GCTCGCGAGC
  GGCAGCCCTA AGGAGCGCAG TGGCGGGAGC GTACTCTGGC GGCCACCTCC CCCGCCTGCT
  TATGAAGGCG GCCTGGCCGA GCACCCGCCG GCCTCCCCGC CCCCGGCCGC CCCGCCCCCG
  GCCCGCACCC CGAGCCCCAG GCGGGTGCCT CTGCGTTGCC AGGGCGCCCC CTGCCGGGAG
  Y
  GCGGCGCTCG ACCCGGCCCG TAGGGCTGCA ACAGGCAGGG TAACCCGCCT TGCCTCTCTC
  TTTCCCTGCG GCTCATCCTG GCTTCAGGGT GCAGCTGGCT TGTCTTTAGG TTTGATTTCT
  CTGTAGGAGA CTTTGTCCCT CGATGGTTGT CTTCCTGTGC CTGACCCTGC GCGTCTGTGA
  ACCCACCTGG CTCCTTTTTT                                            
  
  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	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	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
ss363423859	MGP_WTSI_4_137352378	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	T	C	C	C	C
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	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
rs258388729					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	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
ss363423859	MGP_WTSI_4_137352378	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:137523774 () rs orientation: forward

Symbol	Name	Function Class
Alpl	alkaline phosphatase, liver/bone/kidney	79 bp upstream
Cpgi15139	CpG island 15139	within coordinates
Rr602723	regulatory region 602723	1618 bp distal
Rr602724	regulatory region 602724	90 bp distal
Rr602725	regulatory region 602725	134 bp distal
Rr602726	regulatory region 602726	within coordinates
Rr602727	regulatory region 602727	within coordinates
Tssr1350	transcription start site region 1350	167 bp upstream
Tssr44149	transcription start site region 44149	138 bp upstream
Tssr44150	transcription start site region 44150	102 bp upstream