rs29858609 SNP Detail

Summary

• ID
  rs29858609
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:32449406 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTGTACATGC CTCTAACCCC
  ATACTTGGAA GGCAGAAGCC AAAGGACCAC CATTTCAAAT TCATCCACAG AAGTACAGAA
  TGTTCAAGGC CAGCAGGAGC TACTAAGACA TTGCGTCAAA AAAAAAAAAA AAAAACAAAC
  AAAAAACAAC AACAACAAAA AAAAACCCAA CCTAGAAACA AATAACTATG GTCATAATTT
  Y
  AGTGATTTGG CATGAAACAA TAGCTTTATT GTGGACATCT CGGCCTCAAA ATGCTTAGGA
  TGGTATTAAC CAGTTGTGAT GTTTCACACC TGTAATCTCA GTACTTGGTC TGATGAAGCA
  GGAAGACTGT GCTGAGACAG AGGCCAACCC ATGGGCTCAT GTCTAGATCC TGTCTCAATA
  CATAAGTAAA TAAGTTAATT                                            
  
  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
ss49576425	NES12853673	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	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
rs29858609					SNP	T	T	T	T	T	T	C	T	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
ss49576425	NES12853673	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:32449406 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13056	CpG island 13056	1430 bp proximal
Gm56797	predicted gene, 56797	1808 bp upstream
Gm65709	predicted gene, 65709	within coordinates
Pik3ca	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha	1797 bp upstream
Rr397633	regulatory region 397633	1595 bp upstream
Rr574951	regulatory region 574951	867 bp distal
Rr574952	regulatory region 574952	751 bp proximal
Rr574953	regulatory region 574953	1407 bp proximal
Rr574954	regulatory region 574954	1924 bp proximal
Tssr28746	transcription start site region 28746	1769 bp upstream
Tssr28747	transcription start site region 28747	1850 bp upstream
Tssr28748	transcription start site region 28748	1893 bp upstream
Tssr28749	transcription start site region 28749	1981 bp upstream