rs225840530 SNP Detail

Summary

• ID
  rs225840530
• Variation Type
  SNP
• Alleles
  C/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
  Chr5:143804074 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCGGGCCCA GAGCTGTAGG
  GCACCGGGAG GTGGCGGGCA GGCTGTCAAG GGTTAGGTAA ATATTTACTA CAAGAGCGTC
  TACGCTCTAC CCGTTTGTGG GCATTTGTAT TTCTTGACTT CTGTTTTGCG CCACTTCCCC
  GAGGCCGCTT TTCGCTTCTT GTTTTTCTTC GCTGAGTGTA ATCTTTGTTC ACTGCTAGAA
  Y
  GAGATTAGAT AAGTAAAGAT TAGATAAGTA ATGATTTCTT TTAGCGAGGT AGTACACGAA
  CGCTCCAGTT TTCTTGAGGC TTTTGATACA TGTAAATCAA ATTGTGTAAC GTAAGGCGCG
  TCGTCTTCAA AACATCGATT CTTATGTAGG TTAACGTTCT GGTATTTTAC AGAAAGTGCA
  GTTGGTTGGT ACCAGTTGCT                                            
  
  Y = C/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	A/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss367023237	MGP_WTSI_5_144579188	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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
SNP Consensus Information
SNP					Consensus Type	A/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs225840530					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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

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
ss367023237	MGP_WTSI_5_144579188	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:143804074 () rs orientation: forward

Symbol	Name	Function Class
Cpgi16998	CpG island 16998	7 bp distal
Eif2ak1	eukaryotic translation initiation factor 2 alpha kinase 1	within coordinates
Rr399488	regulatory region 399488	930 bp downstream
Rr399489	regulatory region 399489	460 bp downstream
Rr624298	regulatory region 624298	1110 bp distal
Rr624299	regulatory region 624299	521 bp distal
Rr624300	regulatory region 624300	within coordinates
Rr624301	regulatory region 624301	160 bp distal
Rr624302	regulatory region 624302	891 bp proximal
Tssr49676	transcription start site region 49676	501 bp downstream
Tssr49677	transcription start site region 49677	476 bp downstream
Tssr49678	transcription start site region 49678	454 bp downstream