rs28244586 SNP Detail

Summary

• ID
  rs28244586
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:164284134 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGCCTCCTGA ACATAATCAA
  CTATTCCCTA AATAAGCCCA GAGAAAAGGT GGCTTTCAAA AGAACATTAA TGATTAAACT
  CCAGAGTCTC ACTCCCCCTA AAACTTAGAC TAACGGTACA AATGGCCCGT GCTCATGGGT
  CAGACCACCC TCTCCCAGGA ACTGTCATGC CCTGTAAATT CCCTTGCCTC CTAAACGCCT
  R
  CTAGGACTGA GCTGATCCGG CCCTAGATCC TTGTTGACTC TGATCCTGAA AAGGAAAGGT
  TTCTTTAGGT TCCCTGGGAT CTTTTCTCCT CTAGATCCTT CTCCGCACTC AGGTGGGTGC
  CTCAATTTCC CCGTGTGCGG TTTCAACCAA AACACTTCCC ACAAAACAGT TGAAGCTCAA
  TCTCTAGCCT GGAGCTGATC                                            
  
  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	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37517405	NES08888833	PERLEGEN	MM_PANEL2	f	SNP	A		A	A	A	A	G		A		G	A		G	A	G	A		A
ss45209662	mCV22941849	ABI	CRAMUS_MOUSE	f	SNP		A	A					G		G
ss148225032	ENSMUSSNP2340058	ENSEMBL	ENSEMBL_Sanger	f	SNP		A	A							G
ss320605915	CHEV_2_164267714	CHEVERUD	SCREENING_POP	f	SNP													A					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs28244586					SNP	A	A	A	A	A	A	G	G	A	G	G	A	A	G	A	G	A	G	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
ss37517405	NES08888833	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:164284134 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr367359	regulatory region 367359			799 bp downstream
Rr569612	regulatory region 569612			1390 bp distal
Rr569613	regulatory region 569613			within coordinates
Rr569614	regulatory region 569614			958 bp proximal
Rr569615	regulatory region 569615			962 bp proximal
Sdc4	syndecan 4			Intron
				Noncoding-Transcript-Variant
Tssr21589	transcription start site region 21589			1156 bp upstream
Tssr21590	transcription start site region 21590			1193 bp upstream
Tssr27482	transcription start site region 27482			963 bp downstream
Tssr27483	transcription start site region 27483			1082 bp downstream
Tssr27484	transcription start site region 27484			1699 bp downstream
Tssr27485	transcription start site region 27485			1860 bp downstream