rs39684355 SNP Detail

Summary

• ID
  rs39684355
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr5:45826499 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATCACATGTG ACTTCAGATC
  CTCATGTGTG TTCAGCAAGC ACTTTACCCA TGAATCATTA TCTCCCCAGG TCCTCTAGGG
  ATTCCCAGAG TACCTACAGA ACAACATAGT CTGGAGGCAG CCCTCTTCCT GATACGTGTC
  ACCAATGTAG ATTTCCAGTA CAGACGGAAT AGGTGGCTGC ATTTATGTTT CCCAAGTCAT
  Y
  AAGCAACACA CCAAGTAAGT TTCCCGGTTT TGGAGTGGTA TGTCCTATGT CCCAGGTGAG
  GCATTTAGAA ATAATTTTAT ATATCCAGCA CGCGATCTTA GTCAAGACCC CCAAATTCCT
  TTTATACTGT CTGCGTTCTC CTCTGCTTAG CAGAGTTGTT AGGCAGATTT GTCAAGCACA
  TCCGTCACGC TGGAGCATCT                                            
  
  Y = C/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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss51715814	NES14748521	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs39684355					SNP	C	C	C	C	C	C	T	C	C	C	C	C	T	C

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
ss51715814	NES14748521	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:45826499 () rs orientation: forward

Symbol	Name	Function Class
1600023N17Rik	RIKEN cDNA 1600023N17 gene	within coordinates
Cpgi15841	CpG island 15841	88 bp proximal
Ncapg	non-SMC condensin I complex, subunit G	762 bp upstream
Rr367838	regulatory region 367838	425 bp upstream
Rr611093	regulatory region 611093	530 bp distal
Rr611094	regulatory region 611094	646 bp distal
Rr611095	regulatory region 611095	241 bp distal
Rr611096	regulatory region 611096	272 bp proximal
Rr611097	regulatory region 611097	513 bp proximal
Tssr46141	transcription start site region 46141	727 bp upstream
Tssr46142	transcription start site region 46142	750 bp upstream
Tssr46143	transcription start site region 46143	847 bp upstream
Tssr46144	transcription start site region 46144	1076 bp upstream