rs38827271 SNP Detail

Summary

• ID
  rs38827271
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:113601700 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCATGCGAAC CTGCCTTGGT
  GATGACAACT TGGAGGGTTA CAGACAAAAA AAATGTATGA ACAGACAAGA ACCAGCCTGT
  GTCATAATTG CTGCGCTAGG CACCGAGCTT AGAGGTTTGC GAAAGCATGG GCAGAGTGTG
  GGTGCGTCCA GGTGAAGAAA GAGCACGCAG CTTAGGAGAA CCGGAGTAGG ATAAGTCAGC
  W
  GAGGGAGTTA ACAGTTGTAG TTGGGGGATC ACCTTTACCG ATTGGCGTCT TGGCCGAAAA
  CAAGTGAGTA TGGGATAACG GGTTGAACTC TCGATCTTTC TGCCTTCGCC ACTGATTTCA
  GGTTTGTACC AAGCCTGACC ACGTAAGCTT ATTAACTGTG ACAAGCATCA GTGGAAGTCA
  GTCAGTTCTA TCAGTGTCAT                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss51840275	NES14765927	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	A	T	T	A	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs38827271					SNP	T	T	T	T	T	T	T	T	T	A	T	T	A	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
ss51840275	NES14765927	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:113601700 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi17851	CpG island 17851			within coordinates
Gm66537	predicted gene, 66537			1053 bp downstream
Rr636555	regulatory region 636555			770 bp distal
Tssr58233	transcription start site region 58233			702 bp downstream
Tssr58234	transcription start site region 58234			677 bp downstream
Tssr58235	transcription start site region 58235			575 bp downstream
Tssr58236	transcription start site region 58236			61 bp downstream
Tssr62461	transcription start site region 62461			1207 bp upstream
Vhl	von Hippel-Lindau tumor suppressor			Intron
				Noncoding-Transcript-Variant