rs16817599 SNP Detail

Summary

• ID
  rs16817599
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr9:69196079 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                              CTTTATGCTG AATTTCAAGA
  CTACTTACCA GGCTTCCGCT TTACTTAAAA CGTTGGCAAC TATGCCTACA GTATTGCGCA
  TAAAAGGGGG GAAAAATCTA CTAAGCCAAA CTTGCTTACC TAGTGCAGAT CTGAGACAGC
  CCCCACCCTC TGATGATCAA ACAGGAAGGA TTCTAATATT TCTCTTTCCA TGGAACCAAG
  S
  TAGCCTTGAC CCTGTGTTGT GGCGGTAATT TAGAACACAT GCAGACATCT AGCCCCATAA
  CAAAGATTCA GATCTGTTCA TTCCCCCTCC CAACCCCCAT TTCAAGGAAA AAGAAATGTT
  TTCCAAACAT TTACACAGTT CTAGGATTGG AATGGTCAGA AAACGTCATT GTCTTTTAGT
  TAAGCTATGG CCTTACAAAA                                            
  
  S = C/G
  

  
  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	129/Sv	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	CAST/EiJ	FVB	LG/J	LP/J	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SPRET/EiJ
ss24772999	Rora_JC9827_5	ROCHEBIO	RPAMM	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G
SNP Consensus Information
SNP					Consensus Type	129/Sv	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	CAST/EiJ	FVB	LG/J	LP/J	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SPRET/EiJ
rs16817599					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:69196079 () rs orientation: reverse

Symbol	Name	Function Class
Cpgi21987	CpG island 21987	514 bp proximal
Rora	RAR-related orphan receptor alpha	Intron
Rr682144	regulatory region 682144	395 bp proximal
Rr682145	regulatory region 682145	896 bp proximal
Tssr85839	transcription start site region 85839	393 bp downstream
Tssr85840	transcription start site region 85840	1044 bp upstream
Tssr85841	transcription start site region 85841	1068 bp upstream
Tssr85842	transcription start site region 85842	1105 bp upstream
Tssr85843	transcription start site region 85843	1112 bp upstream