rs16817598 SNP Detail

Summary

• ID
  rs16817598
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr9:69196246 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                                        TGAAT TTCAAGACTA CTTACCAGGC
  K
  TCCGCTTTAC TTAAAACGTT GGCAA                                      
  
  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	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	CAST/EiJ	FVB	KK/HlJ	LG/J	LP/J	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ
ss24772998	Rora_JC9827_4	ROCHEBIO	RPAMM	f	SNP	T	T	T	G	G	T	T		T	T	G	T		G	T	G	G	G	G		T			G
ss61417126	NES16801207	PERLEGEN	MM_PANEL2	r	SNP								A		A	C		A							C		C
ss322997865	CHEV_9_69136771	CHEVERUD	SCREENING_POP	r	SNP														C									A
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	CAST/EiJ	FVB	KK/HlJ	LG/J	LP/J	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ
rs16817598					SNP	T	T	T	G	G	T	T	T	T	T	G	T	T	G	T	G	G	G	G	G	T	G	T	G

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
ss61417126	NES16801207	PERLEGEN	MM_PANEL	r	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:69196246 () rs orientation: reverse

Symbol	Name	Function Class
Cpgi21987	CpG island 21987	347 bp proximal
Rora	RAR-related orphan receptor alpha	Intron
Rr682144	regulatory region 682144	228 bp proximal
Rr682145	regulatory region 682145	729 bp proximal
Tssr85839	transcription start site region 85839	560 bp downstream
Tssr85840	transcription start site region 85840	877 bp upstream
Tssr85841	transcription start site region 85841	901 bp upstream
Tssr85842	transcription start site region 85842	938 bp upstream
Tssr85843	transcription start site region 85843	945 bp upstream