rs254108703 SNP Detail

Summary

• ID
  rs254108703
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:74536014 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        ATCCC ACTTACTACG ACTGTCATTT
  Y
  GCACCCGAGG TCAGCGGCCG CCACG                                      
  
  Y = C/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	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss915491292	MGP_WTSI_2_74705670	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	C	T	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs254108703					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	C	T	T	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
ss915491292	MGP_WTSI_2_74705670	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:74536014 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11800	CpG island 11800			within coordinates
Gm38462	predicted gene, 38462			within coordinates
Hoxd8	homeobox D8			Coding-Synonymous
				Intron
Igs15	intergenic site 15			within coordinates
Rr559363	regulatory region 559363			1421 bp distal
Rr559364	regulatory region 559364			1045 bp distal
Rr559365	regulatory region 559365			924 bp distal
Rr559366	regulatory region 559366			919 bp distal
Rr559367	regulatory region 559367			508 bp distal
Rr559368	regulatory region 559368			691 bp proximal
Rr559369	regulatory region 559369			1978 bp proximal
Tssr18420	transcription start site region 18420			1125 bp downstream
Tssr18421	transcription start site region 18421			1022 bp downstream
Tssr18422	transcription start site region 18422			833 bp downstream
Tssr18423	transcription start site region 18423			756 bp downstream
Tssr18424	transcription start site region 18424			741 bp downstream
Tssr18425	transcription start site region 18425			592 bp downstream
Tssr18426	transcription start site region 18426			569 bp downstream
Tssr18427	transcription start site region 18427			514 bp downstream
Tssr18428	transcription start site region 18428			481 bp downstream
Tssr18429	transcription start site region 18429			292 bp downstream
Tssr18430	transcription start site region 18430			68 bp upstream
Tssr24623	transcription start site region 24623			145 bp downstream