rs16790809 SNP Detail

Summary

• ID
  rs16790809
• Variation Type
  SNP
• Alleles
  A/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:122037376 (GRCm39)
• SNP Orientation to the Genome
  reverse

• SNP Reference Flanking Sequence

                         TTCATATTA CAGGTGATTT AAATTCTTTA ATGTGTCTGT
  GCATGATTTA TATGCTTTCA GTGCCTTGCA TATTTTACTT AATAATACTG TTGCTGTAAC
  W
  CCATGGTTTC TTGGTGAAGA GAAAAGTAAT CTACATTTCC TTTGGCTGCA GAAGAAAGGG
  ATACAAGCCA GAAGAACTTG GCTGCAAAGT CATTGTGAGT                      
  
  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	129/Sv	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SM/J	SPRET/EiJ
ss24743333	Gclm_AN8137_13	ROCHEBIO	RPAMM	f	SNP	T	T	T	T	T	T	T	T	T	T	A	A	T	T	T	T	T	A	T	A	T	A	A
ss135737742	ENSMUSSNP177593	ENSEMBL	ENSEMBL_Sanger	r	SNP												T
ss320909877	CHEV_3_121946645	CHEVERUD	SCREENING_POP	r	SNP														A								T
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	C57BL/6J	CAST/EiJ	DBA/2J	FVB	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SM/J	SPRET/EiJ
rs16790809					SNP	T	T	T	T	T	T	T	T	T	T	A	A	T	T	T	T	T	A	T	A	T	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:122037376 () rs orientation: reverse

Symbol	Name	Function Class
Cpgi13765	CpG island 13765	1490 bp proximal
Gclm	glutamate-cysteine ligase, modifier subunit	1830 bp upstream
Gm46822	predicted gene, 46822	within coordinates
Gm65290	predicted gene, 65290	within coordinates
Rr375675	regulatory region 375675	within coordinates
Rr397979	regulatory region 397979	1472 bp upstream
Rr584261	regulatory region 584261	613 bp distal
Rr584262	regulatory region 584262	within coordinates
Rr584263	regulatory region 584263	508 bp distal
Rr584264	regulatory region 584264	126 bp proximal
Rr584265	regulatory region 584265	1015 bp proximal
Rr584266	regulatory region 584266	1613 bp proximal
Rr584267	regulatory region 584267	1746 bp proximal
Tssr31477	transcription start site region 31477	598 bp downstream
Tssr31478	transcription start site region 31478	1749 bp upstream
Tssr31479	transcription start site region 31479	1836 bp upstream
Tssr31480	transcription start site region 31480	1854 bp upstream
Tssr31481	transcription start site region 31481	1883 bp upstream
Tssr31482	transcription start site region 31482	1898 bp upstream
Tssr35443	transcription start site region 35443	1492 bp downstream
Tssr35444	transcription start site region 35444	1575 bp downstream