rs244010289 SNP Detail

Summary

• ID
  rs244010289
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr1:30988198 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAAACAGCA AAATAATAAT
  AATAATTAAA AAAAGCAAGC CAGGATAGGA TTCATGACCC CTAAGCTCCG GAATCCAGAC
  CTCTGGTCAC CGCACAGACC GTTCCGACAC CGTGGAAATT TCAGCTCGCC AGCGGTGGAA
  TGGTGCAGGG CTGCTCGCTC AACAGGAGCC GCGCAGTTCT GCCCAGCAGC TCCTGTTGCT
  M
  CAGCCCAAGA GCGGACCGCC CCACGCGCAG CCCGCCTCGG GGCCGAGTCA GAGTCCCCCT
  CCGCCGACCG GGTCGCCACT ACCGAAGCCC GGCGGCGATC GGCAAGCCCG GGCTTGAGCG
  GCGCGCACAG TCGCGAGGTC CGCAATCACG GGTTCACGGT GGCGAGCGCG GGCGGCCACC
  GAGGCCATCT TGGGAGGCCC                                            
  
  M = A/C
  

  
  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	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
ss349112161	MGP_WTSI_1_31005962	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	A	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	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
rs244010289					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	A	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
ss349112161	MGP_WTSI_1_31005962	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:30988198 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi100	CpG island 100			within coordinates
Gm53209	predicted gene, 53209			754 bp upstream
Ptp4a1	protein tyrosine phosphatase 4a1			Intron
				mRNA-UTR
Rr408767	regulatory region 408767			within coordinates
Rr408768	regulatory region 408768			182 bp proximal
Rr408769	regulatory region 408769			280 bp proximal
Rr408770	regulatory region 408770			983 bp proximal
Tssr6137	transcription start site region 6137			747 bp upstream
Tssr6138	transcription start site region 6138			772 bp upstream
Tssr6139	transcription start site region 6139			1138 bp upstream
Tssr11170	transcription start site region 11170			439 bp upstream
Tssr11171	transcription start site region 11171			16 bp upstream
Tssr11172	transcription start site region 11172			180 bp downstream
Tssr11173	transcription start site region 11173			639 bp downstream
Tssr11174	transcription start site region 11174			760 bp downstream
Tssr11175	transcription start site region 11175			787 bp downstream
Tssr11176	transcription start site region 11176			900 bp downstream
Tssr11177	transcription start site region 11177			970 bp downstream
Tssr11178	transcription start site region 11178			1024 bp downstream