rs257899228 SNP Detail

Summary

• ID
  rs257899228
• 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
  Chr4:154109242 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACATACTAG AAGTACAGGC
  CGTGAGATAC GGATAAAGTT AGGTACTGGG TACCCAATGT TCCCTTGTGG CACCCAGCTC
  CAGGACCCGG ACCCTGTCTC CCAGCAGCGG GGGCACTGGG GATACAGCCC GTCCTACATA
  ACCCTGTGTA CCTGAAGGTA CAGCAGGCCA CTGGGCTGCA GGAAATGGGC TGAGGTTCTG
  R
  GCTCCAGAAC CTCAGGACGC TCGGCTGAAT GGGAAGAGGA AGGGCACCAT CTTAACAGCC
  GCGCGTGTCT TCTGGTGGAG CCTCTGACTG ACAGCCTGAG GTGACAGAGT GTTGCTGGAG
  TGTGGGCGGG CTGTTGTTTC AGAAAGAATC TGCCAGCTGC TTGCACAGGG CTGTCCCTTC
  CTCCTGTGGC AGCCACATTA                                            
  
  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
ss363758474	MGP_WTSI_4_153398894	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	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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
rs257899228					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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
ss363758474	MGP_WTSI_4_153398894	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:154109242 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Ccdc27	coiled-coil domain containing 27			1854 bp downstream
Cpgi15428	CpG island 15428			1008 bp proximal
Gm57064	predicted gene, 57064			936 bp upstream
Rr606055	regulatory region 606055			within coordinates
Rr606056	regulatory region 606056			821 bp proximal
Rr606057	regulatory region 606057			1359 bp proximal
Rr606058	regulatory region 606058			1435 bp proximal
Smim1	small integral membrane protein 1			Intron
				mRNA-UTR
Tssr40573	transcription start site region 40573			1237 bp upstream
Tssr40574	transcription start site region 40574			1409 bp upstream
Tssr44852	transcription start site region 44852			1008 bp upstream
Tssr44853	transcription start site region 44853			987 bp upstream
Tssr44854	transcription start site region 44854			838 bp downstream
Tssr44855	transcription start site region 44855			872 bp downstream
Tssr44856	transcription start site region 44856			1121 bp downstream
Tssr44857	transcription start site region 44857			1141 bp downstream
Tssr44858	transcription start site region 44858			1275 bp downstream