rs27563209 SNP Detail

Summary

• ID
  rs27563209
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:134098406 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CAGGT TGGGGACTGT GCTGCTGCAG
  Y
  TTGCCGGGAG CCCCACCTCG CAATG                                      
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37761942	NES09159761	PERLEGEN	MM_PANEL2	f	SNP	T		T	T	T	T	T		C	T	T	C		T	T	T	T		T
ss45719197	mCV22573674	ABI	CRAMUS_MOUSE	f	SNP		T	T					C		T
ss147527435	ENSMUSSNP288907	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	T							T
ss321347219	CHEV_4_133927010	CHEVERUD	SCREENING_POP	f	SNP													T					T
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27563209					SNP	T	T	T	T	T	T	T	C	C	T	T	C	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
ss37761942	NES09159761	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:134098406 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi15037	CpG island 15037			within coordinates
Extl1	exostosin-like glycosyltransferase 1			Coding-Synonymous
				Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr601651	regulatory region 601651			424 bp proximal
Rr601652	regulatory region 601652			1453 bp proximal
Tssr43895	transcription start site region 43895			519 bp downstream
Tssr43896	transcription start site region 43896			1434 bp downstream
Tssr43897	transcription start site region 43897			1480 bp downstream