rs6339538 SNP Detail

Summary

• ID
  rs6339538
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr2:148514639 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTAACCCGGA ACCTACACTG
  TCTTTGCCGC CACACCTGGG CGGAGCCAAG TTTTCTACTG GCTCGCGTAG CTGCCCGTCG
  CGGGGAGGCG GGAGTCGACG GGAACCGGGA TGCTAGCGCC TGCGCACATT GCAGCTTGCG
  GCGCGCGGGA AGCCACTACC GGCGCTTAAC CGTTCCTCGC CTCCTGGACG TCGGCTTCTC
  W
  GGCGGAGCCT CTGGGAGGAA GAGGAGAACA GGAGAGAAAC TCTTCTGGCC CGGGACCGCG
  ACCGGGGCGG AACCCGGGAC CGAGTCGCCT TGGCGGCGCT GACCGAGATC GAGCAGGTAA
  GTGAGCGCTC CTGCCTGGCC GTCTGGCAAC GCCGCGGCAC CAGGGACCTC TTCCCTTTTC
  TTAGGCTCAA TAAGACATGG                                            
  
  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	C57BL/6J	CZECHII/EiJ
ss8745564	WI_WGS_2_149708708	WI	MOUSE	f	SNP	A	T
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6339538					SNP	A	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:148514639 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12399	CpG island 12399	within coordinates
Gm75182	predicted gene, 75182	1878 bp downstream
Nxt1	NTF2-related export protein 1	within coordinates
Rr397374	regulatory region 397374	31 bp downstream
Rr566945	regulatory region 566945	83 bp distal
Rr566946	regulatory region 566946	213 bp distal
Rr566947	regulatory region 566947	within coordinates
Tssr20647	transcription start site region 20647	within coordinates