rs258092520 SNP Detail

Summary

• ID
  rs258092520
• 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
  Chr4:154108926 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGCTGTCCT CAGCCCCTCC
  TCCACCTGCT GCTTCTGAGA GGAGTCAGGC AGGGCTTCTG TGGGTGCGGG GGCTCCAGAG
  GGCTGTAGAT GGGCAGGAAA TAAAGACACA CGAGTGCCCA GAACAGAAAG GTTCCTAGCA
  CCAAACCATC CCTGACTCCC CCAGGGCCAG CCACCCCAGG AAAAGGACAG ACACAGTGAC
  R
  TCACTGCCAT GCATGGTTGC TCCGACCTAC TGCCAACAGG CTTATAGTGG ACACTAGCAT
  GTCATTTACC CTCTGACCTC TCCTGTTACC TCGTGTTTAC CTAAAGGGAG CAGGGCACAT
  ACTAGAAGTA CAGGCCGTGA GATACGGATA AAGTTAGGTA CTGGGTACCC AATGTTCCCT
  TGTGGCACCC AGCTCCAGGA                                            
  
  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
ss363758468	MGP_WTSI_4_153398578	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	G	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	A	A	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
rs258092520					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	G	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	A	A	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
ss363758468	MGP_WTSI_4_153398578	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:154108926 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi15428	CpG island 15428			1324 bp proximal
Gm57064	predicted gene, 57064			1252 bp upstream
Rr606055	regulatory region 606055			within coordinates
Rr606056	regulatory region 606056			1137 bp proximal
Rr606057	regulatory region 606057			1675 bp proximal
Rr606058	regulatory region 606058			1751 bp proximal
Smim1	small integral membrane protein 1			Intron
				mRNA-UTR
Tssr40573	transcription start site region 40573			1553 bp upstream
Tssr40574	transcription start site region 40574			1725 bp upstream
Tssr44852	transcription start site region 44852			692 bp upstream
Tssr44853	transcription start site region 44853			671 bp upstream
Tssr44854	transcription start site region 44854			1154 bp downstream
Tssr44855	transcription start site region 44855			1188 bp downstream
Tssr44856	transcription start site region 44856			1437 bp downstream
Tssr44857	transcription start site region 44857			1457 bp downstream
Tssr44858	transcription start site region 44858			1591 bp downstream