rs16817594 SNP Detail

Summary

• ID
  rs16817594
• 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
  Chr9:69195696 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGGTGGGCT ATTTTGGTGG
  CACTCTTCTT TTTACATGAC TAACACAAGG GAAACCCAAA ACCAAATTTG AAGACTGGGG
  CGTTGCCTCA TTGGGAGATG GAGTTGCATC ATGGGAACAT GGTGTGATTT AATTTCATAA
  TTGTAAACAT TACAGTGGGT ATGGCTGATT TCCTCTGTAA CCCTTGTCCA CTTCACTATG
  S
  CTGGACAGCA GAGTTAACAT GGGTAGGTCC TGGCTTCAGA TTCTTTTCCT GTCTCTTTTT
  TTTTTTTTTT TTTTTTTTTT TTTTTTTTTT TTTGTGTGTG TGTGTGTGTG TGGTTGTATT
  TCAAAAAATT CTAAAGGAAA AAAAAAACCT ACTTGGGGAT GAATGTGTCT GAAATCAAAC
  ATTTTTGTAA GGCCATAGCT                                            
  
  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	BTBR T<+> Itpr3/J	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	KK/HlJ	LG/J	LP/J	MOLF	MOLF/EiJ	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J
ss24772994	Rora_JC9826_3	ROCHEBIO	RPAMM	f	SNP	C	C	C	C	C	C	C		C	C	C	G	C	C		C	C	C		C	C	C	C		C		C
ss61417128	NES16801205	PERLEGEN	MM_PANEL2	f	SNP								C		C		G			C				C					C		C
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	BTBR T<+> Itpr3/J	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	KK/HlJ	LG/J	LP/J	MOLF	MOLF/EiJ	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J
rs16817594					SNP	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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
ss61417128	NES16801205	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:69195696 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi21987	CpG island 21987			897 bp proximal
Rora	RAR-related orphan receptor alpha			Intron
				mRNA-UTR
Rr682144	regulatory region 682144			778 bp proximal
Rr682145	regulatory region 682145			1279 bp proximal
Tssr85839	transcription start site region 85839			10 bp downstream
Tssr85840	transcription start site region 85840			1427 bp upstream
Tssr85841	transcription start site region 85841			1451 bp upstream
Tssr85842	transcription start site region 85842			1488 bp upstream
Tssr85843	transcription start site region 85843			1495 bp upstream