rs259658225 SNP Detail

Summary

• ID
  rs259658225
• 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
  Chr1:172039763 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAGGTCTTC TCCCAGTACG
  GGACCAGCTG TAGAGAGAAC CAAACACATG AGTTTAATAG AGGTTAGGAG CACACGAGTC
  CATAAGAGGA TGAGAGCCAG CCCAGGGATG AGAGGAGGCA AGAGGAGCTG GCAGTGCATG
  GAGGGACAGC CAGCAACCAG ACACTGGGTT GTAGGTAAAG ATGATCAGTG AAAGAGAAAC
  Y
  CCAGTGGAAA AGAATGAGGA AGGCAGCCTC TCCCTTCTGA GGAGAAGCAC AGAGCCCCTC
  CTTTGTTCCC GAGTCTGATT ATGACTGGCC TTGTACCTTT GAGCTATTCA CATCTCTAAA
  AAGTCCTCAG TTCCTGCATA TCTATATCTG TCTGTCTGTC TGTCTGTCTG TCTGTCTGTC
  TATCTATCTA TAAGATTATT                                            
  
  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	ZALENDE/EiJ
ss352401074	MGP_WTSI_1_174142327	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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs259658225					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	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
ss352401074	MGP_WTSI_1_174142327	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:172039763 () rs orientation: forward

Symbol	Name	Function Class
Casq1	calsequestrin 1	within coordinates
Gm17224	predicted gene 17224	within coordinates
Rr423487	regulatory region 423487	1350 bp proximal
Tssr10179	transcription start site region 10179	1851 bp downstream
Tssr15169	transcription start site region 15169	1992 bp upstream
Tssr15170	transcription start site region 15170	1970 bp upstream
Tssr15171	transcription start site region 15171	1952 bp upstream
Tssr15172	transcription start site region 15172	1871 bp upstream
Tssr15173	transcription start site region 15173	1777 bp upstream
Tssr15174	transcription start site region 15174	1723 bp upstream
Tssr15175	transcription start site region 15175	174 bp upstream
Tssr15176	transcription start site region 15176	868 bp downstream
Tssr15177	transcription start site region 15177	922 bp downstream
Tssr15178	transcription start site region 15178	946 bp downstream
Tssr15179	transcription start site region 15179	968 bp downstream
Tssr15180	transcription start site region 15180	1173 bp downstream
Tssr15181	transcription start site region 15181	1749 bp downstream