rs30809648 SNP Detail

Summary

• ID
  rs30809648
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr3:95496308 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTTGAACCC AAACCTGCCT
  CCTTTTGGTG ATGTTTGTCT GGATCGCAAC ACAATAGCCC GGAGGACCTC CCCTCGTAAG
  CTCCGATTGG CTAGAGTCAA ACTTGGGGGT TTCTGATTGG CCCAATGAAG AAACACCAAG
  GTAGGTTGCC TAGTGATCCT GAGGAAGCTG ATGTGTTATT CCCTCTCTGC AACGAAGGAT
  Y
  AGGAAGTTTG TACTCTCTGT GTGGCTGAGA AGTTTTTCAC CTACTGGAAC CCGCCTAGGG
  TACGGGAAAC AGGTGCCCTC CAAAACGAGA GCGCGAACTG CAGCCTACGT CCCACTGCAG
  CTCAGGAGCA ACGTCAGGTG AGCAAATATA ACACTTCTTA ACATCCAACA GAGCTGGTCA
  GTATTTTACT TTAGAGAGAA                                            
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss45468952	mCV23591875	ABI	CRAMUS_MOUSE	f	SNP		T	C					C
ss46775594	NES10752354	PERLEGEN	MM_PANEL2	f	SNP	T		C	C	C	T	C		C	C	C	C	C	C	C	C	C
ss135512290	ENSMUSSNP5981574	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	C
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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs30809648					SNP	T	T	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C

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
ss46775594	NES10752354	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95496308 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm40097	predicted gene, 40097			180 bp upstream
Gm42671	predicted gene 42671			within coordinates
Golph3l	golgi phosphoprotein 3-like			mRNA-UTR
				Noncoding-Transcript-Variant
Hormad1	HORMA domain containing 1			1326 bp downstream
Rr397841	regulatory region 397841			103 bp downstream
Rr580975	regulatory region 580975			1035 bp distal
Rr580976	regulatory region 580976			196 bp distal
Rr580977	regulatory region 580977			within coordinates
Rr580978	regulatory region 580978			168 bp distal
Rr580979	regulatory region 580979			4 bp proximal
Rr580980	regulatory region 580980			1639 bp proximal
Tssr30603	transcription start site region 30603			44 bp downstream
Tssr30604	transcription start site region 30604			9 bp downstream
Tssr30605	transcription start site region 30605			within coordinates
Tssr30606	transcription start site region 30606			38 bp upstream