rs580199404 SNP Detail

Summary

• ID
  rs580199404
• Variation Type
  SNP
• Alleles
  C/G

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

Genome Location and Flanking Sequence

• Location
  Chr4:3088813 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AGCGG GGCAGGGAAA GTACAAGTTT
  S
  CATAACTAAG GGGTTCTGCC AAGGG                                      
  
  S = C/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	BTBR T<+> Itpr3/J	BUB/BnJ	C57BL/6J	C57L/J	CAST/EiJ	CE/J	DBA/1J	MOLF/EiJ	PL/J	ST/bJ	ZALENDE/EiJ
ss916546835	MGP_WTSI_4_3088813	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	G	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	BTBR T<+> Itpr3/J	BUB/BnJ	C57BL/6J	C57L/J	CAST/EiJ	CE/J	DBA/1J	MOLF/EiJ	PL/J	ST/bJ	ZALENDE/EiJ
rs580199404					SNP	C	C	C	C	G	C	C	C	C	C	C

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
ss916546835	MGP_WTSI_4_3088813	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:3088813 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13988	CpG island 13988	1304 bp proximal
Rr588148	regulatory region 588148	677 bp proximal
Tssr36318	transcription start site region 36318	727 bp upstream
Tssr36319	transcription start site region 36319	949 bp upstream
Tssr36320	transcription start site region 36320	1490 bp upstream
Tssr36321	transcription start site region 36321	1569 bp upstream
Tssr36322	transcription start site region 36322	1660 bp upstream
Tssr36323	transcription start site region 36323	1858 bp upstream
Tssr36324	transcription start site region 36324	1963 bp upstream
Tssr40800	transcription start site region 40800	755 bp downstream
Tssr40801	transcription start site region 40801	981 bp downstream
Tssr40802	transcription start site region 40802	1402 bp downstream
Tssr40803	transcription start site region 40803	1459 bp downstream