rs258540893 SNP Detail

Summary

• ID
  rs258540893
• Variation Type
  SNP
• Alleles
  G/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
  Chr2:115896980 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGCGCTCTA GCTTTTGTTC
  GTTTTAATTC CGCGGCCCCC TTCCTCTGCC GGCGGATTAC TAGGTCCCGA ACTCTGCCAC
  TACAACCTAG AGCAGCAAGC TCCGCCAACT GCACCACCGC CAGGCTAGGA TTTTTGTTGT
  TGTTGTTGTT GTTGTTGTTG TTAAGTGGTA CTTTCTTTCT CGTGCAGATG CAGAGCCCTT
  K
  TTGTCAATAT TCATTTTTGT CTAGTACAAG ATATGAGCAG CTGAACTCGG AGCATAGTCC
  CTCGGTGCGC TGCAGACAGT GTAGACCACC ATTGAGAGTC TAGGGGTCCT GGGCTCAATC
  TGGAGGGAGA AAGCAGGATG AGAGTTAGTA GGGCGGGAGT TAGTGGGGTA GGAGTTAGAG
  GAGAGGGAGT TGTTTGGTGT                                            
  
  K = G/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
ss355357869	MGP_WTSI_2_115892235	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	G	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	G	T	G	T	T	T	T	T	T	T	G	T	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	ZALENDE/EiJ
rs258540893					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	G	T	G	T	T	T	T	T	T	T	G	T	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
ss355357869	MGP_WTSI_2_115892235	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:115896980 () rs orientation: forward

Symbol	Name	Function Class
2700033N17Rik	RIKEN cDNA 2700033N17 gene	within coordinates
Cpgi12067	CpG island 12067	1787 bp distal
Cpgi12068	CpG island 12068	497 bp distal
Cpgi12069	CpG island 12069	38 bp proximal
G630016G05Rik	RIKEN cDNA G630016G05 gene	726 bp upstream
Meis2	Meis homeobox 2	mRNA-UTR
Rr562985	regulatory region 562985	1871 bp distal
Rr562986	regulatory region 562986	962 bp distal
Rr562987	regulatory region 562987	354 bp distal
Rr562988	regulatory region 562988	193 bp proximal
Rr562989	regulatory region 562989	979 bp proximal
Rr562990	regulatory region 562990	1480 bp proximal
Rr562991	regulatory region 562991	1606 bp proximal
Tssr19467	transcription start site region 19467	714 bp upstream
Tssr19468	transcription start site region 19468	1434 bp upstream
Tssr25721	transcription start site region 25721	1901 bp upstream
Tssr25722	transcription start site region 25722	1750 bp upstream
Tssr25723	transcription start site region 25723	1728 bp upstream
Tssr25724	transcription start site region 25724	1366 bp upstream
Tssr25725	transcription start site region 25725	1261 bp upstream
Tssr25726	transcription start site region 25726	843 bp upstream
Tssr25727	transcription start site region 25727	810 bp upstream
Tssr25728	transcription start site region 25728	794 bp upstream
Tssr25729	transcription start site region 25729	764 bp upstream
Tssr25730	transcription start site region 25730	703 bp upstream
Tssr25731	transcription start site region 25731	646 bp upstream
Tssr25732	transcription start site region 25732	534 bp upstream
Tssr25733	transcription start site region 25733	436 bp upstream
Tssr25734	transcription start site region 25734	626 bp downstream
Tssr25735	transcription start site region 25735	656 bp downstream
Tssr25736	transcription start site region 25736	856 bp downstream
Tssr25737	transcription start site region 25737	892 bp downstream