rs253925404 SNP Detail

Summary

• ID
  rs253925404
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:53370704 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAAAACCAG ACAGGAAAGG
  AAGAAGGCGG CGCCCGCCAG GCAGACCCAG GCTCTCGCCA TCGCGAGGGT CTGGGAGGCG
  AAAGTCAGCG AGGCCTGAAG CCGGCTCTAG GGCAGAGGCA GACTAAAGCA CCGGGAAACT
  CGACCGGAGA ACCGCCGAAG ACTAATTCCG GGTGTCCTGC TCCTTGCTCC GCCCCGAGTC
  R
  GGCGCCCAGC GAGTGACCCT GGTCCCCACG CCGAGGTGCT CCTGGCCACT AGGATGGCGG
  CGTCCGCAGA TCTTCCTGAC CTACTTACTC TTCGCTCCTT TAAACTCACT TTCAAGAAGC
  AAAACAGAGC ACCGAGAAAC TGAAGAGTTA GGGGATCGTG ACACTAAAAC AATGACTACC
  ACGCTCCGAA AAGGACTTTA                                            
  
  R = A/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
ss357982237	MGP_WTSI_3_53267205	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	G	A	A	A	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A	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
rs253925404					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	A	G	A	A	A	A	A	A	A	A	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
ss357982237	MGP_WTSI_3_53267205	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:53370704 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13163	CpG island 13163	within coordinates
Nhlrc3	NHL repeat containing 3	mRNA-UTR
Proser1	proline and serine rich 1	512 bp upstream
Rr374971	regulatory region 374971	within coordinates
Rr576696	regulatory region 576696	474 bp distal
Rr576697	regulatory region 576697	39 bp proximal
Rr576698	regulatory region 576698	308 bp proximal
Rr576699	regulatory region 576699	394 bp proximal
Tssr29113	transcription start site region 29113	291 bp upstream
Tssr29114	transcription start site region 29114	383 bp upstream
Tssr29115	transcription start site region 29115	411 bp upstream
Tssr29116	transcription start site region 29116	496 bp upstream
Tssr29117	transcription start site region 29117	612 bp upstream
Tssr33269	transcription start site region 33269	51 bp upstream
Tssr33270	transcription start site region 33270	within coordinates