rs6253958 SNP Detail

Summary

• ID
  rs6253958
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:54630925 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACTTAGCAC ACTAAGGGGT
  TTGCTTTGCC GATAAGAGGT CTAGTTGTCT TTCTTACACT TTTTAAAAAC AAATGTTGCT
  TGTTTCCTTT CTGTCCATGT GTGGGGGATG GTGATGGTCA GAGGACTAGT GGGAAGAAGT
  TATTACCTTC TTCCACTCTT GGGTTCTGGG GTCAATCTTG GGGACAAGTG CCTTCACTGG
  R
  TGGAGGTTTT TGTTGTTACT GTTGTTTTTG AGGCAAGCTC TTACTCTGTA TTGCAACATA
  ACTTGGAACT CAGCAGTCAT TCTACTCCAG CACCTAGGTG TGAACCTGCC AGCTGTTTGC
  CTATTTAAGT TTGCATTTTA GTAGTATTGA GTACATTCAC ATCATTGCAC AAAGAATATT
  TTATTGTGCA AAATTGGAAC                                            
  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8659738	WI_WGS_3_55190962	WI	MOUSE	f	SNP							G		A
ss46955772	NES10809416	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G		A		G	G	A	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6253958					SNP	G	G	G	G	G	G	G	A	A	G	G	A	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
ss46955772	NES10809416	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:54630925 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr397673	regulatory region 397673			221 bp upstream
Rr397674	regulatory region 397674			737 bp upstream
Rr576833	regulatory region 576833			347 bp proximal
Supt20	SPT20 SAGA complex component			Intron
				Noncoding-Transcript-Variant