rs52393473 SNP Detail

Summary

• ID
  rs52393473
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:26207929 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGCTGCCAG GATCCAGAAT
  CCTGGAGAAC CAAAGCCGCA TCCGTGTAAT TCCTACCATC AGGCAAGAAA TACAAACGAT
  CAAACAACGT TACTTCTTTG AGCTGCGATC AGATAATCCT ACTAATCCAA TAGATTTATC
  TCGATTGGAA ATTGACCTCA AAGATGAATC CCCAGTGCTC GCGTCCAGTA GAACGATTCC
  R
  TAGCCCTATC CGGGTTACCG AAGGGCTGTG GTTTCTTTCT TTCCTTTCCT TTTCTTCTTT
  CCTTCCTGCC TTTTTTAATT TTTTAAAAAT CTTTTTGGAT TCTGGGTGCA CTGCTCGCAA
  AAGAAAAAAA AGAAAGAAAG AAAAGAAAAA AATGCCGAGG ACCCTGGTTT TCCCCTAATA
  CAGGTTTCTA CTCCAAATCG                                            
  
  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	129X1/SvJ	A/J	DBA/2J	MSM/Ms
ss134692060	ENSMUSSNP3831235	ENSEMBL	ENSEMBL_Sanger	f	SNP	G	G	G	A
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	DBA/2J	MSM/Ms
rs52393473					SNP	G	G	G	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:26207929 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13014	CpG island 13014			417 bp distal
Nlgn1	neuroligin 1			Intron
				mRNA-UTR
Rr574308	regulatory region 574308			1858 bp distal
Rr574309	regulatory region 574309			484 bp distal
Rr574310	regulatory region 574310			within coordinates
Tssr32822	transcription start site region 32822			314 bp upstream
Tssr32823	transcription start site region 32823			123 bp upstream
Tssr32824	transcription start site region 32824			116 bp downstream
Tssr32825	transcription start site region 32825			177 bp downstream
Tssr32826	transcription start site region 32826			215 bp downstream