rs39898868 SNP Detail

Summary

• ID
  rs39898868
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:8949181 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACCGGGCGC ATTCGTCTCT
  CTCCCTCCCT TTCTTCCTTC CTCCGTCGTC TTCTCTACCT GCCCCTCCTT CTCTTGCCTC
  TTAAGTTTCC TGCACCGGGA ATTCAACTGT GCCAAGCCTA GGCTCCCGCG GACCAATCCG
  GATCGCGACC CGGGCACTGG GACAACGACT CCGCCAAGGC TGGACGAGGC AGCTGGACCT
  K
  TCCTCGCCCG AGCATGGAGA CGGAGCTCCG GGGAGGGCAC GTCCCGGGCG CTGGAGACTC
  CAGGCCGTAG TAGCTCCTCC ATGGAGCCTG TTCAGAGCGG TTCTTGCTCG CTGCATTTGC
  CTCCAGTCCT GTGCGGTATG TACCGGTCGC CTCCACCGTT CTTGGCAGGG ACACGTTGGG
  GCAGGGTGGT GGTCATCACC                                            
  
  K = G/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	BALB/cByJ	C3H/HeJ	CAST/EiJ
ss51545580	NES14860424	PERLEGEN	MM_PANEL2	f	SNP	G	G	T
SNP Consensus Information
SNP					Consensus Type	BALB/cByJ	C3H/HeJ	CAST/EiJ
rs39898868					SNP	G	G	T

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
ss51545580	NES14860424	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:8949181 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi17155	CpG island 17155			within coordinates
Cpgi17156	CpG island 17156			479 bp proximal
Cpgi17157	CpG island 17157			1873 bp proximal
Nxph1	neurexophilin 1			mRNA-UTR
				Noncoding-Transcript-Variant
Rr626455	regulatory region 626455			557 bp distal
Rr626456	regulatory region 626456			531 bp distal
Rr626457	regulatory region 626457			5 bp proximal
Tssr54925	transcription start site region 54925			743 bp downstream
Tssr54926	transcription start site region 54926			579 bp downstream
Tssr54927	transcription start site region 54927			562 bp downstream
Tssr54928	transcription start site region 54928			252 bp downstream
Tssr54929	transcription start site region 54929			218 bp downstream
Tssr54930	transcription start site region 54930			113 bp downstream
Tssr54931	transcription start site region 54931			489 bp upstream
Tssr54932	transcription start site region 54932			631 bp upstream