rs46399590 SNP Detail

Summary

• ID
  rs46399590
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr1:64993975 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACTATAACA TACATAGTCA
  GGTAGACATG ACTTCTGTGA TGGTTGTGAG GATTAGAGGA AAACACAAAA ACAAAGTTAG
  CAGAAGGTCG TGATGGAGCT ATGCCTGTCC CAGAGTCTTG GGTGTCAAAT TAACAATGTG
  TCTGCAGGTT TTCTGATAAA CCTCCAGTGC GTGAATCTAC CAAATAAAAC ACCACAAGCC
  R
  TCGTACTGTC ACAGCACTAA AGGCAAGCGT GAGTGAGGCT GCTGTGTGGC AATAAAGAAT
  TCTGAGCATA TAATGTTGTG AACACTGATA CCTGAGCCAT TTTAATTGTG GCAAAATACT
  CAAAACATAA AATTTACCAT GGTAACCACT AAGCCAAGCA TTGTCATGCA GCCCAACCCC
  CACTGGTCTT TCATCTTGCA                                            
  
  R = A/G
  

  
  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
ss60745017	NES16383987	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	G	A	A	A	G	A	A	A	A
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
rs46399590					SNP	A	A	A	A	A	A	G	A	A	A	G	A	A	A	A

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
ss60745017	NES16383987	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:64993975 () rs orientation: forward

Symbol	Name	Function Class
Cpgi329	CpG island 329	1609 bp proximal
Gm51627	predicted gene, 51627	1686 bp upstream
Plekhm3	pleckstrin homology domain containing, family M, member 3	within coordinates
Rr412356	regulatory region 412356	1422 bp proximal
Rr412357	regulatory region 412357	1697 bp proximal
Rr412358	regulatory region 412358	1929 bp proximal
Rr412359	regulatory region 412359	1998 bp proximal
Tssr11945	transcription start site region 11945	1895 bp downstream
Tssr11946	transcription start site region 11946	1915 bp downstream
Tssr11947	transcription start site region 11947	1991 bp downstream