rs27439866 SNP Detail

Summary

• ID
  rs27439866
• 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
  Chr2:121128290 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TAGGA TGCTTGGCAG AGAGCATCGC
  Y
  GGCCCTGTTT CTTGTTTTGA GCCAG                                      
  
  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	BTBR T<+> Itpr3/J	DBA/2J	LG/J	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37645891	NES09021226	PERLEGEN	MM_PANEL2	f	SNP	C		C			C		C	C	T		C
ss147383204	ENSMUSSNP2384158	ENSEMBL	ENSEMBL_Sanger	f	SNP		C		C			T
ss320482575	CHEV_2_121123545	CHEVERUD	SCREENING_POP	f	SNP					T						C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	BTBR T<+> Itpr3/J	DBA/2J	LG/J	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27439866					SNP	C	C	C	C	T	C	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
ss37645891	NES09021226	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:121128290 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12154	CpG island 12154			1780 bp proximal
D2Dcr65	DNA Segment, Chr 2, Derry C. Roopenian 65			57 bp distal
D2Mit445	DNA Segment, Chr 2, Massachusetts Institute of Technology 445			76 bp distal
Gm14978	predicted gene 14978			1801 bp upstream
Map1a	microtubule-associated protein 1 A			Intron
				Noncoding-Transcript-Variant
Rr563800	regulatory region 563800			1812 bp distal
Rr563801	regulatory region 563801			1311 bp distal
Rr563802	regulatory region 563802			within coordinates
Tssr19741	transcription start site region 19741			783 bp upstream
Tssr19742	transcription start site region 19742			1674 bp upstream