rs225003899 SNP Detail

Summary

• ID
  rs225003899
• 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
  Chr1:135301083 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCGTACCTT CAAACGTGCT
  CTGGAGCTGC TGGCGCCTTC GGTATAGGTA ACAACAGGAA CAGAGGAAGC AGCAGATGGT
  GGTGGCAACC ACAGCAACAA AGAGGATTAC AGCAGAGGCG ATGCCTGCTA TGGTCTTGGG
  ACTTTAGACA AAAAACAGGT CCTCTCACCT TCCAACATTC ATAAGAGGAA CTCCTCACGG
  W
  GCTGACTCCA ACTCTTGGCC AGCAGGGAGC CACAGCATGC TATGTCTTGG GGTTCCCTGT
  GGGATTAATT CTGCCCACCT TGTTAAGTAG CTCTAAGAGA CCTCTACTTC CCAGGAGGCC
  ATGCTGTCTG GGTAGCTGGC ATGAGGCATG CTGGGATTTG TAGTGTGCCC ACCTACCACT
  GCTTTTATAT TGGTTAGGTT                                            
  
  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
ss351539929	MGP_WTSI_1_137269922	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A
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
rs225003899					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A

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
ss351539929	MGP_WTSI_1_137269922	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:135301083 () rs orientation: forward

Symbol	Name	Function Class
Cpgi790	CpG island 790	1091 bp proximal
Rr28595	regulatory region 28595	within coordinates
Rr28596	regulatory region 28596	517 bp proximal
Shisa4	shisa family member 4	within coordinates
Tssr13840	transcription start site region 13840	1457 bp upstream
Tssr13841	transcription start site region 13841	1013 bp upstream
Tssr13842	transcription start site region 13842	135 bp upstream
Tssr13843	transcription start site region 13843	64 bp downstream
Tssr13844	transcription start site region 13844	82 bp downstream
Tssr13845	transcription start site region 13845	123 bp downstream
Tssr13846	transcription start site region 13846	613 bp downstream
Tssr13847	transcription start site region 13847	1074 bp downstream
Tssr13848	transcription start site region 13848	1574 bp downstream
Tssr13849	transcription start site region 13849	1591 bp downstream
Tssr13850	transcription start site region 13850	1610 bp downstream
Tssr13851	transcription start site region 13851	1754 bp downstream
Tssr13852	transcription start site region 13852	1878 bp downstream
Tssr13853	transcription start site region 13853	1888 bp downstream
Tssr13854	transcription start site region 13854	1905 bp downstream
Tssr13855	transcription start site region 13855	1923 bp downstream
Tssr13856	transcription start site region 13856	1937 bp downstream