rs49650797 SNP Detail

Summary

• ID
  rs49650797
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:85924003 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACTAGTCCA GATGCACCTT
  TAAGGAGCTG GGCTGGTTAA TTGATTTACA GCTGGCCCTG TGGGGGAAAG TTCGTGGTAC
  CCACGGGTGA GCTAGACCTA GTGGCTGTAA AATCCACTTC CCTACTTTCC CACTCACACA
  ACCATTTTTA GCTTGCATAC TCCAAGTAGC TGGCTTCTTT CTCCAGGGGC TAGATCACCG
  W
  GTAGCCAGCT AGACTGGGTT TGTGCCCACC CTCCTGGGCC CGGTGGTGGG AGGTGTTCAG
  GTCCTAGACG GAGCCAAACC CCTCTTGTTT GAGGATGTGG GGGGTGGAAG GGCCTTTAGC
  GGGCGGCGGG GCTCATTAGG CAGAGCGGGG TGCCGAGAGG TGCGCGCTGC CGGCCCCAGA
  GGCCGCCTTT GAGCCGTCGG                                            
  
  W = A/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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss62953693	NES17409309	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T		A	T	T	A		T
ss325486766	CHEV_17_86015915	CHEVERUD	SCREENING_POP	f	SNP											A					T
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs49650797					SNP	T	T	T	T	T	T	T	T	T	T	A	A	T	T	A	T	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
ss62953693	NES17409309	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85924003 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9589	CpG island 9589	1116 bp distal
Cpgi9590	CpG island 9590	4 bp proximal
Cpgi9591	CpG island 9591	513 bp proximal
Cpgi9592	CpG island 9592	1159 bp proximal
Gm54532	predicted gene, 54532	1492 bp upstream
Gm55783	predicted gene, 55783	1840 bp downstream
Gm55784	predicted gene, 55784	1293 bp downstream
Gm55785	predicted gene, 55785	127 bp upstream
Rr532267	regulatory region 532267	1125 bp distal
Rr532268	regulatory region 532268	533 bp distal
Rr532269	regulatory region 532269	468 bp proximal
Rr532270	regulatory region 532270	1488 bp proximal
Six3	sine oculis-related homeobox 3	within coordinates
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr5219	transcription start site region 5219	1778 bp downstream
Tssr5220	transcription start site region 5220	1988 bp downstream
Tssr149707	transcription start site region 149707	1763 bp upstream
Tssr149708	transcription start site region 149708	1565 bp upstream
Tssr149709	transcription start site region 149709	1517 bp upstream
Tssr149710	transcription start site region 149710	1423 bp upstream
Tssr149711	transcription start site region 149711	1399 bp upstream
Tssr149712	transcription start site region 149712	1113 bp upstream
Tssr149713	transcription start site region 149713	1788 bp downstream
Tssr149714	transcription start site region 149714	1803 bp downstream
Tssr149715	transcription start site region 149715	1838 bp downstream
Tssr149716	transcription start site region 149716	1920 bp downstream
Tssr149717	transcription start site region 149717	1973 bp downstream
Tssr149718	transcription start site region 149718	1997 bp downstream