rs38406950 SNP Detail

Summary

• ID
  rs38406950
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:129005496 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTAAGAGACT TAAGCAAATT
  AGAGTCTTAT CAGATTAAAA ACCACTACAA ATGTAAGAAC ATTGTCTTCA AGCAAACGCT
  GTGGGGTCTG AGGAGATTCT CCCGCCCCCG CCAAATCTCA GGGATAAAAT GCGTCATTTA
  AGCACCAGAT AATGAGTAGA ATGTAAATTA ATTTAACCTT CTTTACCAAC AGGCTGCTGG
  Y
  GTAATGTGTA TAATTTAGTG ATAAGGTTGG AAGACCTAAT GTAGCTGGAT GTATGAGCCT
  CAGTTAATTC AGGCCTGCCA CACGGGCTGG TGTTCTGCTG AGCAGGTGCA TGTGTGTGTG
  TGTTGTGTAG AACAGGGTGA GGCAGAATAA AGGTTAAAAC TCAGAATGCT GACCTAAAGC
  TTAGAAAGAA ATGTCTAAAT                                            
  
  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
ss51624884	NES14657985	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	C	T	T	T	C	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
rs38406950					SNP	T	T	T	T	T	T	T	T	T	C	T	T	T	C	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
ss51624884	NES14657985	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:129005496 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13808	CpG island 13808	1690 bp proximal
Gm27195	predicted gene 27195	52 bp downstream
Pitx2	paired-like homeodomain transcription factor 2	Intron
Rr584968	regulatory region 584968	1839 bp distal
Rr584969	regulatory region 584969	1528 bp distal
Rr584970	regulatory region 584970	315 bp proximal
Rr584971	regulatory region 584971	1635 bp proximal
Tssr1043	transcription start site region 1043	1823 bp downstream
Tssr31630	transcription start site region 31630	1835 bp downstream