rs31238801 SNP Detail

Summary

• ID
  rs31238801
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr3:90519739 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TGCATAAGCT GCTCTAAGGA TGAAAATCCA GGCAGTGAGT
  GGGAGGAGGC GAGTGATGTT GCTAGAAATT TATGGTTGGT GGGGGATGCT GTTTAAAATC
  K
  TTTAGACTGT GTTCTTTCCC CATGCCCCCT TTGATACAAG GCTCAAAATT CTACCTTTTG
  GGATCAACGT CTTTAGCTAT ATATCAAGAT TTAGACCAG                       
  
  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	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss45513218	mCV24985124	ABI	CRAMUS_MOUSE	f	SNP		T	T					T		G
ss60424278	NES15923541	PERLEGEN	MM_PANEL2	f	SNP	T		T	T	T	T	T		T	G	T	G		G	T	T	G		G
ss135477184	ENSMUSSNP1290868	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	T							G
ss320838147	CHEV_3_90416354	CHEVERUD	SCREENING_POP	f	SNP													T					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs31238801					SNP	T	T	T	T	T	T	T	T	T	G	T	G	T	G	T	T	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
ss60424278	NES15923541	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90519739 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13468	CpG island 13468	554 bp proximal
Gm57853	predicted gene, 57853	752 bp upstream
Rr580416	regulatory region 580416	49 bp distal
Rr580417	regulatory region 580417	245 bp proximal
Rr580418	regulatory region 580418	356 bp proximal
S100a5	S100 calcium binding protein A5	652 bp downstream
S100a6	S100 calcium binding protein A6 (calcyclin)	450 bp upstream
Tssr30242	transcription start site region 30242	136 bp downstream
Tssr30243	transcription start site region 30243	400 bp upstream
Tssr30244	transcription start site region 30244	437 bp upstream
Tssr30245	transcription start site region 30245	468 bp upstream
Tssr30246	transcription start site region 30246	714 bp upstream
Tssr30247	transcription start site region 30247	744 bp upstream
Tssr30248	transcription start site region 30248	850 bp upstream
Tssr30249	transcription start site region 30249	1087 bp upstream
Tssr30250	transcription start site region 30250	1296 bp upstream
Tssr30251	transcription start site region 30251	1343 bp upstream
Tssr30252	transcription start site region 30252	1914 bp upstream
Tssr30253	transcription start site region 30253	1938 bp upstream
Tssr34246	transcription start site region 34246	1979 bp downstream