rs49916779 SNP Detail

Summary

• ID
  rs49916779
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr17:85923290 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGTCTTGAG GTTAGCAATC
  TCACTCTGAC CAGCGTAGGA GGGTGGGCTG GTGAGCATAC GAAGATGGGC TTCCAGAAAG
  TCCTGAGTGG AGAACCGAGA GTTCCCTGCT CCACCAACCC AGCAAGTGCT AGGGGTACTC
  AAGAAGGGAG TGAAAGGGGA CCTTGAGTTC CAACTGTCCA GGAGAAAGAA CAATGGAGGC
  R
  AGAGGGCAGT GAGAGATGTC AACTCTTCCT GAGGAGTGAA GTGCAGTTTC TAATGGTTTC
  TTATATTAAC TAGTTAGCTG TGTTCCTTGG CCCAAGAAGA GGAGAGAAGG AGTAGATGCT
  TGTCCTAGTG GGTGGCTGTC TCCACTCCCT TTTCCTAGGA TTTTCCCCCT CTCGTCCAGG
  TTTTTTTGGG GTCCCAGTCT                                            
  
  R = A/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	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
ss62953699	NES17409305	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	G	G	G	G		A	G	G	A		G
ss325486762	CHEV_17_86015202	CHEVERUD	SCREENING_POP	f	SNP											A					G
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
rs49916779					SNP	G	G	G	G	G	G	G	G	G	G	A	A	G	G	A	G	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
ss62953699	NES17409305	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:85923290 () rs orientation: forward

Symbol	Name	Function Class
Cpgi9588	CpG island 9588	1783 bp distal
Cpgi9589	CpG island 9589	403 bp distal
Cpgi9590	CpG island 9590	717 bp proximal
Cpgi9591	CpG island 9591	1226 bp proximal
Cpgi9592	CpG island 9592	1872 bp proximal
Gm55783	predicted gene, 55783	1127 bp downstream
Gm55784	predicted gene, 55784	580 bp downstream
Gm55785	predicted gene, 55785	840 bp upstream
Rr532266	regulatory region 532266	1627 bp distal
Rr532267	regulatory region 532267	412 bp distal
Rr532268	regulatory region 532268	within coordinates
Rr532269	regulatory region 532269	1181 bp proximal
Six3	sine oculis-related homeobox 3	within coordinates
Six3os1	SIX homeobox 3, opposite strand 1	within coordinates
Tssr149707	transcription start site region 149707	1050 bp upstream
Tssr149708	transcription start site region 149708	852 bp upstream
Tssr149709	transcription start site region 149709	804 bp upstream
Tssr149710	transcription start site region 149710	710 bp upstream
Tssr149711	transcription start site region 149711	686 bp upstream
Tssr149712	transcription start site region 149712	400 bp upstream