rs6323288 SNP Detail

Summary

• ID
  rs6323288
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:130660947 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAAAACCCAC AAATATTCTA
  ACTCCGATCA AATTTACTCA GGGTCTACTA GCTAGTTAAA TCTCTGATTT TACCTGTTGA
  TCGATGTAGA CCAAAAAAAA AAAAAAAGTT ACTTGGCCAT GCTGGGCCTC ACCCACATTT
  TATTTCATCT CAACATACCA AACCTAGCCA GACTTCCAAC TGGGGCTCAG GTCAGAGTGA
  Y
  GCGGCAGAGT CCATAGGAGT AGAGGCTTGG GTGGGGCTTA TGCTTCGTGT TTCTTCAGAT
  GTCCCTGTGG ACACAAAGTG TAGCTGGAGC ATCTGTCTAA AGAAGCTGCC ACGGAAGTGC
  AGTCAGGGGA GCAATAAGCT CGCTCCCATC AGCACGGAGG TCAGCACACA GCAGCGAACT
  TTACCTCTGG CCTTCTGCAC                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8729273	WI_WGS_1_131564010	WI	MOUSE	f	SNP							T		C
ss49673603	NES12996641	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T		T		T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6323288					SNP	T	T	T	T	T	T	T	T	C	T	T	T	C	T	T	C	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
ss49673603	NES12996641	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:130660947 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
AA986860	expressed sequence AA986860			Intron
				Noncoding-Transcript-Variant
Rr417949	regulatory region 417949			1224 bp distal
Rr417950	regulatory region 417950			590 bp distal
Rr417951	regulatory region 417951			within coordinates
Rr417952	regulatory region 417952			609 bp proximal
Tssr8565	transcription start site region 8565			1219 bp downstream
Tssr8566	transcription start site region 8566			1158 bp downstream
Tssr8567	transcription start site region 8567			1109 bp downstream
Tssr8568	transcription start site region 8568			1075 bp downstream
Tssr13523	transcription start site region 13523			588 bp upstream
Tssr13524	transcription start site region 13524			640 bp downstream