rs257461427 SNP Detail

Summary

• ID
  rs257461427
• 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
  Chr3:146205472 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCACACAG GGCTGAGCTG
  GCGGGACTTG GGACGTGTCA CGGACGCCCC GAGGCAGCGC GGCCACGTCC CTCACCCCGC
  CGTCGGTCGC GGACCTCCCT CCCCGCGCTC CCGAGTCCGC CCCGGGGCGT CCTCTTACCT
  CGCCCTACCC AGCCCCTCCA GAGGCGGAAG GCGCCGGCCG GGCGTCGGGC CGCACCGCCC
  Y
  CGTCGCCACC GCGCCCACCG GCCGCTCCGC CCCTTCTCTC TCTCTCGCGC GCGCGGGGGG
  AGCCCGCGGC CGTCCCGGGG GGAGGGGGAG GGGGCGTCGG CGCGCATGCG CGGCGCGCAC
  AGCCCCGGAA ACTTCGACGA AGTTCGGAGC CCCGCCCCCG CCGTCCCGCG ACCTGCCGCC
  CCCTGCCCGG ACTGACGAGT                                            
  
  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	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	LG/J	LP/J	MA/MyJ	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
ss360119565	MGP_WTSI_3_146162681	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	T	C	C	C	T	C	C	C	T	T	C	C	C	C	C	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	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	LG/J	LP/J	MA/MyJ	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
rs257461427					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	T	C	C	C	T	C	C	C	T	T	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
ss360119565	MGP_WTSI_3_146162681	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:146205472 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13920	CpG island 13920	within coordinates
Gng5	G protein subunit gamma 5	119 bp upstream
Rr77342	regulatory region 77342	within coordinates
Rr398118	regulatory region 398118	675 bp upstream
Spata1	spermatogenesis associated 1	within coordinates
Tssr32351	transcription start site region 32351	within coordinates
Tssr32352	transcription start site region 32352	111 bp upstream
Tssr32353	transcription start site region 32353	133 bp upstream
Tssr32354	transcription start site region 32354	354 bp upstream
Tssr32355	transcription start site region 32355	414 bp upstream
Tssr32356	transcription start site region 32356	444 bp upstream
Tssr32357	transcription start site region 32357	472 bp upstream
Tssr36036	transcription start site region 36036	4 bp downstream
Tssr36037	transcription start site region 36037	90 bp downstream
Tssr36038	transcription start site region 36038	371 bp downstream