rs3090130 SNP Detail

Summary

• ID
  rs3090130
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  103
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:156268051 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCGCTTGTTG CTCGAACCAG
  TGGCTGGCGG CGGTGCTTCT GAGCCTGTGC TCTTGCCTCC CGGCCGGGCA GAGCGTGGAC
  TTCCCTTGGG CGGCCGTGGA CAACATGCTG GTGAGGAAAG GTGACACAGC GGTGCTCAGG
  TAGGGACCGC GCGCCCTCTC TACACTTGCC TCAGTCTGTC TTTCCGTCCC TTTCCCTCTC
  Y
  GCACCTTGCT TTACACCCAG AGTGAATCCT GCTGTTGCTC ACGAGCAAAA ACACCACACC
  TCAGGCTAGC CACGCATGAC CCTTCCTGGG CTTCTCGGAC CCCGGGGCAG GGGTCTGGCT
  GGATTAGGGA GAGAGGGAAA AGCGCTTTCC AAGCAGCCCG GGCTTAGGAA GTGTGGGGCT
  TGAAGGAGGG GCAGGTGCCA                                            
  
  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	129X1/Sv	A	AKR	BALB/cBy	C3H/He	C57BL/6	CAST/EiJ	DBA/2
ss4327029	M-08414-1	WIMOUSESNPS	MITROCHE_POP	f	SNP	T	T	T	T	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129X1/Sv	A	AKR	BALB/cBy	C3H/He	C57BL/6	CAST/EiJ	DBA/2
rs3090130					SNP	T	T	T	T	T	T	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:156268051 () rs orientation: forward

Symbol	Name	Function Class
4930570G19Rik	RIKEN cDNA 4930570G19 gene	668 bp upstream
Cpgi13974	CpG island 13974	within coordinates
Negr1	neuronal growth regulator 1	Intron
Rr587959	regulatory region 587959	772 bp distal
Rr587960	regulatory region 587960	435 bp distal
Rr587961	regulatory region 587961	within coordinates
Rr587962	regulatory region 587962	288 bp distal
Tssr32476	transcription start site region 32476	545 bp downstream
Tssr32477	transcription start site region 32477	421 bp downstream
Tssr32478	transcription start site region 32478	281 bp downstream
Tssr32479	transcription start site region 32479	218 bp downstream
Tssr32480	transcription start site region 32480	257 bp upstream
Tssr32481	transcription start site region 32481	371 bp upstream
Tssr36286	transcription start site region 36286	639 bp upstream