rs6298739 SNP Detail

Summary

• ID
  rs6298739
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:5642198 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCAGAATCAT GCACTCAGTA
  CAATTCTGAT TCTTTGTTTT TTGTTTTTTA AATAATGTGT GTTTTTAAAA AAACAAAACA
  AACAAAAAAA CCTTAGTATC TGGAGTATAT TAAAGGAGAA CTTGGGAGCA AAATTGGGTG
  GAAGACAAAG AAAGCAAACA AATCCCTTTT TAACAAGTAA CCTGACAGTG TAGAAAACAC
  W
  GTAGGAGGAG CTCCAGTTTG CTACAGTAGG TATGGAATAC AGATAGGGAC TGCAGGGATG
  TGTCTAGAGA TGCACCAGTA TACCCACCCC ATGGTGACCA CTATCTTCTT GTGATTGGTT
  TGAAATACAG CCTACTCTAA CTGTAAGGTA TGGACACGAT TCTAAGACAG CTTAAAGGGA
  TACAAAATAC TCATCAATTT                                            
  
  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	A/J	C57BL/6J	CZECHII/EiJ	DBA/2J	LG/J	SM/J
ss8704651	WI_WGS_3_5590542	WI	MOUSE	f	SNP			T	A
ss134543010	ENSMUSSNP4933981	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	A			T
ss320638403	CHEV_3_5577138	CHEVERUD	SCREENING_POP	f	SNP						T	A
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	C57BL/6J	CZECHII/EiJ	DBA/2J	LG/J	SM/J
rs6298739					SNP	T	A	T	A	T	T	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:5642198 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12950	CpG island 12950	374 bp distal
Gm6146	predicted gene 6146	within coordinates
Pex2	peroxisomal biogenesis factor 2	mRNA-UTR
Rr573198	regulatory region 573198	1021 bp distal
Rr573199	regulatory region 573199	409 bp distal
Rr573200	regulatory region 573200	744 bp distal
Rr573201	regulatory region 573201	615 bp distal
Tssr28281	transcription start site region 28281	1225 bp downstream
Tssr32526	transcription start site region 32526	1028 bp upstream
Tssr32527	transcription start site region 32527	976 bp upstream
Tssr32528	transcription start site region 32528	955 bp upstream
Tssr32529	transcription start site region 32529	907 bp upstream
Tssr32530	transcription start site region 32530	894 bp upstream