rs258648939 SNP Detail

Summary

• ID
  rs258648939
• Variation Type
  SNP
• Alleles
  A/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
  Chr4:131646642 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGAGCTCTC AGAGAGAACC
  AGAGCCAGGG TTCTACCTGG GAAAGGGACC TGTAGTCACC ACCCCCCTCA CAGCTCAGCC
  CAATGCCTGA GGCAGTAGTC AGAGGACAGG CAGGCTGATG TCGAGCACTT TGCTCCAGGT
  GTTCAACATG TGTGCGAGCA TTTCAGCTCT GAGAACACAC TGTGGTGCTA TTTGTTCTTA
  W
  AAAGATAGGG AAACTGAGCC CTGGTGAGCT TAGGTGTGCT CTCCTCTCCC ACCCATCTCC
  TTCCTTCCTC CTCCCGGGCC CAGGGTGGAG GAGAGGAGGG GGGTGAAGGA AGTCATAGGC
  CTCACGTATA TATGTCTCTC TAGCATGGAG GGCCAGCTAG GGCACACATT CCCTTGAGCA
  CAAGGCTCTA GAAAGGAGCA                                            
  
  W = A/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
ss363283882	MGP_WTSI_4_131475246	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	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	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
rs258648939					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	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
ss363283882	MGP_WTSI_4_131475246	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:131646642 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14947	CpG island 14947	380 bp proximal
Gm12992	predicted gene 12992	within coordinates
Gm50475	predicted gene, 50475	1485 bp downstream
Rr85751	regulatory region 85751	1442 bp distal
Rr100128	regulatory region 100128	within coordinates
Tmem200b	transmembrane protein 200B	1869 bp upstream
Tssr39357	transcription start site region 39357	1237 bp upstream
Tssr39358	transcription start site region 39358	1819 bp upstream
Tssr39359	transcription start site region 39359	1867 bp upstream
Tssr43616	transcription start site region 43616	1371 bp downstream
Tssr43617	transcription start site region 43617	1688 bp downstream