rs45950042 SNP Detail

Summary

• ID
  rs45950042
• 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
  Chr6:144637027 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        CACACACACA CACACACACA CACACACTCC TAACAATGGT
  AAATTTTGAG TTAGAAATGA AATACACAAA GGATAAGATT AAATAAGGCA AGGCCTTTTA
  Y
  AGAATATAAC TTCTAAGATG TGTGGGAAGT AAGTATATTT GTACTTAGAA GGAAGAGAAA
  GATTTGAAGT AGATATGGGA ATCTGAAGTT CCAGGACGT                       
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss60960414	NES16174080	PERLEGEN	MM_PANEL2	f	SNP	C	C	T	C	C	T	T	T	C	T		T	C	C	T		C
ss133954180	ENSMUSSNP2295739	ENSEMBL	ENSEMBL_Sanger	f	SNP		C						T
ss322064329	CHEV_6_144639821	CHEVERUD	SCREENING_POP	f	SNP											T					C
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs45950042					SNP	C	C	T	C	C	T	T	T	C	T	T	T	C	C	T	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
ss60960414	NES16174080	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:144637027 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr400038	regulatory region 400038			1826 bp downstream
Rr640978	regulatory region 640978			1829 bp distal
Sox5	SRY (sex determining region Y)-box 5			Intron
				Noncoding-Transcript-Variant
Sox5os3	SRY (sex determining region Y)-box 5, opposite strand 3			within coordinates