rs30890709 SNP Detail

Summary

• ID
  rs30890709
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:95496773 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGGCCACAG GGAAATGATG
  AATTCCTCAA AGAAAATTGC CCCCATTCTC CCCGGGGTGT TAAAGTTTCT TGGATTGGGT
  TTGGAAATAA TGCCAAATGG AATTGGCACC CTAAGGCATT GTTCTGTGTT CTGTTCCTTC
  ACTCTTCTTA CTTCCCCTGA AAATTATATT TGAAATATAC GCTTGTATGA AGAATTGTTT
  K
  TAAGACTCTT GGTGTGTATT TCTGGTGCTG TTTAATGAGT ATATATTTAT TTGAGCAGTT
  AAAACGTTAA AGATATTGTG CTAGTTGCTA TGGAGAATAT AAAAATTAAA AGATGACAAT
  ATTTCAGCCC TGGAGAAGTT TAATGTAACA GACAGCCATA ACAAAAGAGG GACTATAATA
  AACATTTTAA AGGGCTTAAG                                            
  
  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	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss45477190	mCV23591885	ABI	CRAMUS_MOUSE	f	SNP		T	G						G
ss46775600	NES10752356	PERLEGEN	MM_PANEL2	f	SNP	T		G	G	G	T	G	G	G	G	G	G	G	G	G	G
ss135512293	ENSMUSSNP3784317	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	G						G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs30890709					SNP	T	T	G	G	G	T	G	G	G	G	G	G	G	G	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
ss46775600	NES10752356	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95496773 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm40097	predicted gene, 40097			645 bp upstream
Gm42671	predicted gene 42671			within coordinates
Golph3l	golgi phosphoprotein 3-like			Intron
				Noncoding-Transcript-Variant
Hormad1	HORMA domain containing 1			1791 bp downstream
Rr397841	regulatory region 397841			568 bp downstream
Rr580975	regulatory region 580975			1500 bp distal
Rr580976	regulatory region 580976			661 bp distal
Rr580977	regulatory region 580977			462 bp distal
Rr580978	regulatory region 580978			633 bp distal
Rr580979	regulatory region 580979			223 bp distal
Rr580980	regulatory region 580980			1174 bp proximal
Tssr30603	transcription start site region 30603			509 bp downstream
Tssr30604	transcription start site region 30604			474 bp downstream
Tssr30605	transcription start site region 30605			453 bp downstream
Tssr30606	transcription start site region 30606			418 bp downstream