rs30173542 SNP Detail

Summary

• ID
  rs30173542
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:71521360 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CCGGC CTGCAGACCA CCCGGAGGAC
  Y
  TGCCCTAGAC CGGAAGGTTG TGTGC                                      
  
  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	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss45902936	mCV25419812	ABI	CRAMUS_MOUSE	f	SNP		T					T		C
ss47971106	NES11901948	PERLEGEN	MM_PANEL2	f	SNP	T	T	C	T	T	C		C	C	T	C		C	C	T	C		C
ss133276467	ENSMUSSNP3503568	ENSEMBL	ENSEMBL_Sanger	f	SNP		T							C
ss321818031	CHEV_6_71494370	CHEVERUD	SCREENING_POP	f	SNP												C					C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs30173542					SNP	T	T	C	T	T	C	T	C	C	T	C	C	C	C	T	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
ss47971106	NES11901948	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:71521360 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
1700040L08Rik	RIKEN cDNA 1700040L08 gene			262 bp upstream
Chmp3	charged multivesicular body protein 3			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
				Noncoding-Transcript-Variant
Cpgi17526	CpG island 17526			within coordinates
Rr399696	regulatory region 399696			408 bp downstream
Rr631970	regulatory region 631970			449 bp distal
Rr631971	regulatory region 631971			within coordinates
Tssr57031	transcription start site region 57031			508 bp downstream
Tssr57032	transcription start site region 57032			478 bp downstream
Tssr57033	transcription start site region 57033			419 bp downstream
Tssr57034	transcription start site region 57034			390 bp downstream
Tssr57035	transcription start site region 57035			9 bp downstream
Tssr57036	transcription start site region 57036			857 bp upstream