rs30322604 SNP Detail

Summary

• ID
  rs30322604
• 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
  Chr3:52949642 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAAGTTCATC TGGACTAGGG
  TAACTCACTC CAGCTGAGAA AGAGGTCCCT TTCTTCCCAC TCCCCACCTT TAATGGTAAC
  CCCCAGACCA ACTCAACTTC AGCCTCTGCT CACAGCTGAC ACGATTTTAA AAACCGTAGC
  CAGAGGGAGC TCCCCTTTGG GTAGAATCCA GAACAGAGGG CGAGCAAAGT GTAGGAGACT
  R
  GAGTTTGGAA GCAGTTTGCA GATGGAACCC GACGGGGTGG GGGTGTTCTT CTGTGTTCTT
  TGTGGAGAGT GTAGCCAGGT GTGCAAGCCA GCCCACCTCA TCGAACCCTT TTGAATAGCT
  GACTTGACAT TAGGTATTGG AAAAGAGTGA GTGCTTGGTC TGAAATGGCC AGCAGGTGAA
  AGCACTGAAG CCAAGGAGTC                                            
  
  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
ss46936055	NES10816410	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	G	G		G	G		A
ss320766601	CHEV_3_52846143	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
rs30322604					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
ss46936055	NES10816410	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:52949642 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13160	CpG island 13160			126 bp distal
Gm42901	predicted gene 42901			73 bp upstream
Lhfpl6	LHFPL tetraspan subfamily member 6			Intron
				Noncoding-Transcript-Variant
Rr576626	regulatory region 576626			783 bp distal
Rr576627	regulatory region 576627			628 bp distal
Rr576628	regulatory region 576628			84 bp distal
Rr576629	regulatory region 576629			within coordinates
Rr576630	regulatory region 576630			47 bp distal
Rr576631	regulatory region 576631			234 bp proximal
Tssr29102	transcription start site region 29102			642 bp downstream
Tssr29103	transcription start site region 29103			586 bp downstream