rs52277574 SNP Detail

Summary

• ID
  rs52277574
• Variation Type
  SNP
• Alleles
  A/T

• 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
  Chr3:123028982 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GACTCAGCAG GCTGTACTTA
  TATAGTTTAT GCATATATAT ATACATATAT ATGTACCCAT ACATACATAC ATAAATACAT
  ACTTACATAT TTAAACATTA AAGAAGAATC CAGAAATTGG GGAAGGAGGG TACATAGGCA
  GAGTTGGAGG AAGGAAAAAG AGTGGAGGGA AATAATGTAA TTATATTTTA ATAAAATAAA
  W
  TTTTTAAAAA ATAATAAAGT ATCTATGACT ATCTTGAGCT CTTAGCCACA TGAGTATAGT
  CAATGGAATA TACAGTTCTT TAAATCCTTA AAAGGCTAGT CTCTTAAACA GATCTCATGA
  CAGTTCTTTA TACCTTAAAG ATTATTGCCC CAAACTGGTC CTTTTACGCC TGTTGCACAA
  TAAATGTCAC TACCAATTAT                                            
  
  W = A/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	129X1/SvJ	LG/J	MSM/Ms	SM/J
ss135760884	ENSMUSSNP4008890	ENSEMBL	ENSEMBL_Sanger	f	SNP	T		A
ss320918236	CHEV_3_122938251	CHEVERUD	SCREENING_POP	f	SNP		T		A
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	LG/J	MSM/Ms	SM/J
rs52277574					SNP	T	T	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:123028982 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13775	CpG island 13775			659 bp proximal
Rr584473	regulatory region 584473			462 bp distal
Rr584474	regulatory region 584474			634 bp distal
Rr584475	regulatory region 584475			753 bp proximal
Rr584476	regulatory region 584476			1587 bp proximal
Synpo2	synaptopodin 2			Intron
				Noncoding-Transcript-Variant
Tssr35497	transcription start site region 35497			778 bp downstream
Tssr35498	transcription start site region 35498			801 bp downstream