rs48894258 SNP Detail

Summary

• ID
  rs48894258
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:90447947 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTAGAAGGGT GATCAGGGGC
  CTTGGGCACC TGGCATTAGG GCTGGACAGA GGTGGAATAT TTGAACATTT CCTTTGAGCA
  GGGTACTGGG TCGGGTATTG TGTGCCAGGC AAGTTACAGA GATTAAAAGG AGGGTACTTG
  TATAATCAGG ATTTAACAAA CCTTGCCCTC AAATGTACAA ATTCTGCTAT TCGGACCAGG
  R
  AACAGCATCT GGATGTAAGA AACACTGTGC TGGCTTTATA GATGGAGAAA TAAGAGGCAG
  AGACTAACCA AACCAGCTAA TGGCCCAAGC TGGTGTTGAC GCAGTGAAGA CAGACATGGC
  TGAGGGAGTC CAGAAAAGGT GTAGGGACGA CAGAGGTCAA GGCACGTTTC CTGCAGGCAT
  AGTTTGGGAG GGCCAGGATG                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60424390	NES15924050	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	A	A	A	G	A	A	G	A
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
rs48894258					SNP	A	A	A	A	A	A	A	A	A	G	A	A	G	A

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
ss60424390	NES15924050	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90447947 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr580398	regulatory region 580398			207 bp proximal
Rr580399	regulatory region 580399			532 bp proximal
S100a16	S100 calcium binding protein A16			Intron
				Noncoding-Transcript-Variant
Tssr30222	transcription start site region 30222			980 bp downstream
Tssr30223	transcription start site region 30223			949 bp downstream
Tssr30224	transcription start site region 30224			515 bp upstream
Tssr30225	transcription start site region 30225			537 bp upstream
Tssr30226	transcription start site region 30226			549 bp upstream
Tssr30227	transcription start site region 30227			577 bp upstream
Tssr30228	transcription start site region 30228			618 bp upstream