rs33099390 SNP Detail

Summary

• ID
  rs33099390
• Variation Type
  SNP
• Alleles
  A/G

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

Genome Location and Flanking Sequence

• Location
  Chr3:95040443 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTTAGAGCT GTTAGGAGCA
  AACGTTCCCT CAAGCCTGTT GTGTGAAGTA TAGCCCTGTC TAAACCACAC CTGATGCCCT
  CTCACCTCAG TTTTGCTTTC TGTCTTCAAT TCGTTCTGCT GTCTTGGATT TTGCTCTGTT
  CCCTTGCCTG TTTGCTTTTT GCCATAGAAA AGCTTCAGAC CTGAGAACAA AAGCAAGGAG
  R
  AATGAAAAGC ACAATGCCTG GTGGCTTGCT CTCCATCTCC CGCCCTCCCC ACTTCTCTGA
  TACTTACTGG ACAAATGCTT CTTGCCTGCA CGGTGGGCTG TCAACATGGC CAGCGTGTCT
  AGTACTGGTC GATGGGGGCA GATGGCACAA GCAAAGCTAG GGAAACGAGA AGTGAATGAT
  GTGTGTGGTG TGTGGTGTGT                                            
  
  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	CAST/EiJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss46771829	NES10666770	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	A	G	G	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	CAST/EiJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs33099390					SNP	G	G	G	G	G	A	G	G	G	G	G	G

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
ss46771829	NES10666770	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95040443 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13498	CpG island 13498			675 bp proximal
D3Umi10	DNA segment, Chr 3, University of Michigan 10			595 bp proximal
Lysmd1	LysM, putative peptidoglycan-binding, domain containing 1			956 bp upstream
Rr367480	regulatory region 367480			774 bp upstream
Rr580822	regulatory region 580822			543 bp distal
Rr580823	regulatory region 580823			869 bp proximal
Rr580824	regulatory region 580824			967 bp proximal
Scnm1	sodium channel modifier 1			Intron
				Noncoding-Transcript-Variant
Tssr30498	transcription start site region 30498			1692 bp downstream
Tssr34419	transcription start site region 34419			766 bp downstream
Tssr34420	transcription start site region 34420			804 bp downstream
Tssr34421	transcription start site region 34421			857 bp downstream