rs49518808 SNP Detail

Summary

• ID
  rs49518808
• Variation Type
  SNP
• Alleles
  G/T

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

Genome Location and Flanking Sequence

• Location
  Chr7:13011935 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATCTAGTAG TCCCATTCAT
  CTGTAGCTCC CTTTCCCACA AGTCTACATT TGAGTGTAAC TCATATCTAC TCTCATAGCT
  AAGGCATGAA TCTCTCATCC CAGTCATAAT CCTCATACAC CTTTCTTCTC CCTAGGTGTA
  TCAAATGTGC AGCTGTTGCC CCTCAGATAT GACTGCCTTG AACTGCTACT TTGATCTGTG
  K
  TTTTTGCTTC CCAGAGATGC TCTTATCTCC AGATGTGCTG CCCATGTCCA GTCAGGGATC
  ATTCGCCTAC AGGGGTGTGG CCCACTTGTG GCAAATTCAA CTCAGAAGTG TCACCAATAG
  TCATCTTTGG TCCATACTCC TAAGACTTAT TCTCCTCCTG GGCCAAGTTG CAGTCCCCTC
  TTCCCAGAAA TTGCTACTAT                                            
  
  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	A/J	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60970714	NES16158023	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	G	T	T	T	T	T	T	G	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49518808					SNP	T	T	T	T	T	G	T	T	T	T	T	T	G	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
ss60970714	NES16158023	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr7:13011935 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi18339	CpG island 18339			308 bp proximal
Lig1	ligase I, DNA, ATP-dependent			Intron
Rr400108	regulatory region 400108			632 bp upstream
Rr642459	regulatory region 642459			within coordinates
Rr642460	regulatory region 642460			125 bp proximal
Rr642461	regulatory region 642461			417 bp proximal
Rr642462	regulatory region 642462			664 bp proximal
Rr642463	regulatory region 642463			818 bp proximal
Rr642464	regulatory region 642464			1267 bp proximal
Tssr64537	transcription start site region 64537			795 bp downstream
Tssr64538	transcription start site region 64538			739 bp downstream
Tssr64539	transcription start site region 64539			535 bp upstream
Tssr64540	transcription start site region 64540			769 bp upstream
Tssr64541	transcription start site region 64541			867 bp upstream
Tssr70659	transcription start site region 70659			652 bp downstream
Zswim9	zinc finger SWIM-type containing 9			Intron
				mRNA-UTR