rs253444102 SNP Detail

Summary

• ID
  rs253444102
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr1:30988067 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTATCCAAT TCTGTTCCAA
  ATACACTCAG GTTTCAGGTA ACGCGCCCAA TCTAGCGCGT GTGCAAGCGC TGTTTCCTTC
  CGGGAACAGA TCGCGATTTT CTGGTTTTCC AACCGTTTTA GCCGGCACGA AGCAAACAGC
  AAAATAATAA TAATAATTAA AAAAAGCAAG CCAGGATAGG ATTCATGACC CCTAAGCTCC
  S
  GAATCCAGAC CTCTGGTCAC CGCACAGACC GTTCCGACAC CGTGGAAATT TCAGCTCGCC
  AGCGGTGGAA TGGTGCAGGG CTGCTCGCTC AACAGGAGCC GCGCAGTTCT GCCCAGCAGC
  TCCTGTTGCT CCAGCCCAAG AGCGGACCGC CCCACGCGCA GCCCGCCTCG GGGCCGAGTC
  AGAGTCCCCC TCCGCCGACC                                            
  
  S = C/G
  

  
  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
ss349112159	MGP_WTSI_1_31005831	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	G	G	C	G	G	G	G	G	G	C	G	G	G	G	G	G	G	C	G	G	G	G
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
rs253444102					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	C	G	G	G	G	G	C	G	G	G	G	G	G	C	G	G	G	G	G	G	G	C	G	G	G	G

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
ss349112159	MGP_WTSI_1_31005831	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:30988067 () rs orientation: forward

Symbol	Name	Function Class
Cpgi100	CpG island 100	within coordinates
Gm53209	predicted gene, 53209	885 bp upstream
Ptp4a1	protein tyrosine phosphatase 4a1	within coordinates
Rr408767	regulatory region 408767	within coordinates
Rr408768	regulatory region 408768	313 bp proximal
Rr408769	regulatory region 408769	411 bp proximal
Rr408770	regulatory region 408770	1114 bp proximal
Tssr6137	transcription start site region 6137	878 bp upstream
Tssr6138	transcription start site region 6138	903 bp upstream
Tssr6139	transcription start site region 6139	1269 bp upstream
Tssr11170	transcription start site region 11170	308 bp upstream
Tssr11171	transcription start site region 11171	104 bp downstream
Tssr11172	transcription start site region 11172	311 bp downstream
Tssr11173	transcription start site region 11173	770 bp downstream
Tssr11174	transcription start site region 11174	891 bp downstream
Tssr11175	transcription start site region 11175	918 bp downstream
Tssr11176	transcription start site region 11176	1031 bp downstream
Tssr11177	transcription start site region 11177	1101 bp downstream
Tssr11178	transcription start site region 11178	1155 bp downstream