rs30322606 SNP Detail

Summary

• ID
  rs30322606
• 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
  Chr3:52950443 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGTGAGTAT GTGAAATGAA
  TTCACTGGCT TGGCAAATAG AAGCCATTCG TTTCTTTAAG TAAATAGCTG TCAGAGTTAA
  TTTGGGAGCA TTTTTACAGG AGATAAAGAC GTGGAAAAGC TTTGAGCTAG TTTGGCAAAA
  CTTGTATAGA GATGCGTATG GAGAGAATTA GTTCTTCCCA CTTTTGAAGC GTTGAAGGAA
  R
  TTTGAAGTTT CCTAAATGAA AACCGTGGAG CTTCTTGAGA CGTGTAAATA TGCTAGACAT
  ACTTAGCTTT CCTTGTTTCC TATTCCATTT TACCAGGGGC CACCAGCCAT CTTCACTCCA
  AAGTATGAGA AGCTGATCGC GGTAATACTG AAACTCTGTT ACGGCAAGTA GCTACATACG
  CCTTGAAGAG CGGTGGACTA                                            
  
  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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	DBA/2J	FVB/NJ	KK/HlJ	LG/J	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
ss46936058	NES10816411	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	G	G		G	G		A
ss320766603	CHEV_3_52846944	CHEVERUD	SCREENING_POP	f	SNP									G			A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	DBA/2J	FVB/NJ	KK/HlJ	LG/J	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
rs30322606					SNP	G	G	G	G	G	G	G	G	G	G	G	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
ss46936058	NES10816411	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:52950443 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13160	CpG island 13160			927 bp distal
Gm42901	predicted gene 42901			874 bp upstream
Lhfpl6	LHFPL tetraspan subfamily member 6			Intron
				Noncoding-Transcript-Variant
Rr576626	regulatory region 576626			1584 bp distal
Rr576627	regulatory region 576627			1429 bp distal
Rr576628	regulatory region 576628			885 bp distal
Rr576629	regulatory region 576629			555 bp distal
Rr576630	regulatory region 576630			848 bp distal
Rr576631	regulatory region 576631			546 bp distal
Rr576632	regulatory region 576632			1210 bp proximal
Tssr29102	transcription start site region 29102			1443 bp downstream
Tssr29103	transcription start site region 29103			1387 bp downstream