rs46954890 SNP Detail

Summary

• ID
  rs46954890
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:90518815 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGCCACATA GCCAGACCTC
  AAGCTGTTTT CAGTAGGAAT TGGTATGAAT TACAGATTAT TATTTCTTTG GATGGGAAGA
  TGTCCCAGGA GCAAAGGCTA GACTAAGCCT TCCTACTGTA ATTCATTTGG AATATGGTCC
  TGTGGTAAAG GTGTGGGCTG GGGCTGGGCT GCTGAGTAGT CTCCTCCTCT TGGGCCCTTG
  Y
  AGAAGATGAA GGAGAGCAGC ATTGATAACT TGATGAAGAG CCTGGACAAA AACAGCGACC
  AGGAGATTGA CTTCAAGGAG TACTCTGTGT TCCTGACCAC GCTGTGCATG GCCTACAATG
  ACTTCTTCCT AGAGGACAAC AAATGACCAG GACACTGGCA GCTCCTGATC CTGACCTCTG
  CAGCCTCTTT AACTGCCCCT                                            
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60424286	NES15923531	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs46954890					SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	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
ss60424286	NES15923531	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90518815 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13468	CpG island 13468			1478 bp proximal
D3Nds7	DNA segment, Chr 3, Nuffield Department of Surgery 3			1744 bp distal
Gm57853	predicted gene, 57853			1676 bp upstream
Rr580415	regulatory region 580415			1897 bp distal
Rr580416	regulatory region 580416			612 bp proximal
Rr580417	regulatory region 580417			1169 bp proximal
Rr580418	regulatory region 580418			1280 bp proximal
S100a5	S100 calcium binding protein A5			Intron
				Splice-Site
S100a6	S100 calcium binding protein A6 (calcyclin)			1374 bp upstream
Tssr30242	transcription start site region 30242			764 bp upstream
Tssr30243	transcription start site region 30243			1324 bp upstream
Tssr30244	transcription start site region 30244			1361 bp upstream
Tssr30245	transcription start site region 30245			1392 bp upstream
Tssr30246	transcription start site region 30246			1638 bp upstream
Tssr30247	transcription start site region 30247			1668 bp upstream
Tssr30248	transcription start site region 30248			1774 bp upstream