rs580415661 SNP Detail

Summary

• ID
  rs580415661
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:129854173 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GCCCG CCCGCCCGCT CTCCCTCCCT
  Y
  CCGCCTGCCT AGGCCCCACG CCGCG                                      
  
  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	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss916433044	MGP_WTSI_3_130060524	EVA_MGPV3	EVA_MGPV3	f	SNP	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	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	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs580415661					SNP	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	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
ss916433044	MGP_WTSI_3_130060524	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:129854173 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13821	CpG island 13821			within coordinates
Rr585124	regulatory region 585124			within coordinates
Rr585125	regulatory region 585125			347 bp proximal
Rr585126	regulatory region 585126			373 bp proximal
Sec24b	SEC24 homolog B, COPII coat complex component			Intron
				Noncoding-Transcript-Variant
Tssr31665	transcription start site region 31665			243 bp upstream
Tssr35653	transcription start site region 35653			149 bp downstream
Tssr35654	transcription start site region 35654			211 bp downstream
Tssr35655	transcription start site region 35655			286 bp downstream
Tssr35656	transcription start site region 35656			314 bp downstream
Tssr35657	transcription start site region 35657			326 bp downstream
Tssr35658	transcription start site region 35658			495 bp downstream
Tssr35659	transcription start site region 35659			961 bp downstream
Tssr35660	transcription start site region 35660			1043 bp downstream