rs27590027 SNP Detail

Summary

• ID
  rs27590027
• Variation Type
  SNP
• Alleles
  C/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
  Chr4:130546953 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AATTCATGTC CTGAGCAACA
  TTAAAAGATT GTCAGCCAAC TAGGTGTGGT AGCACACAAT TTTAATCCCA GCACTTTAAA
  GGCAGAGGCG GGCAGATCTC TATGAGTTTG AGGACAGCCT GATCTACAGC ATGAGTTCCA
  GGATGGCCAG AGCTAGACCC TGTCTCAGGA AAACAAAGAA AAGAAAGAGT AAATAAGTGG
  Y
  TGTCCGCCTG GATTTAAGCC ACCTGCCATC CTTTTTCTCT TTCGTCTTAA GACATTAGTA
  GGTGGTTGGT GCTTTCTGTG TCTTCATTTC TTTACCTGTG AAGGGAAGAC CAGAGAAGGT
  ACACACACTG GTAATCTTAT CACTGGGGAA ACTGAGGCAG GAGGATTGCT GCAAGTTCAG
  TTCAGCCTGG GCTATGCAGT                                            
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
ss37753352	NES09165224	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	T	C		C	C	C
ss147462483	ENSMUSSNP4983341	ENSEMBL	ENSEMBL_Sanger	f	SNP		C									T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
rs27590027					SNP	C	C	C	C	C	C	C	C	T	C	T	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
ss37753352	NES09165224	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:130546953 () rs orientation: forward

Symbol	Name	Function Class
Sdc3	syndecan 3	within coordinates
Tssr39265	transcription start site region 39265	1036 bp downstream
Tssr39266	transcription start site region 39266	1014 bp downstream
Tssr39267	transcription start site region 39267	995 bp downstream
Tssr39268	transcription start site region 39268	965 bp downstream
Tssr39269	transcription start site region 39269	928 bp downstream
Tssr39270	transcription start site region 39270	899 bp downstream
Tssr39271	transcription start site region 39271	854 bp downstream
Tssr39272	transcription start site region 39272	838 bp downstream
Tssr39273	transcription start site region 39273	783 bp downstream
Tssr39274	transcription start site region 39274	741 bp downstream
Tssr39275	transcription start site region 39275	725 bp downstream
Tssr39276	transcription start site region 39276	689 bp downstream
Tssr39277	transcription start site region 39277	672 bp downstream
Tssr39278	transcription start site region 39278	661 bp downstream
Tssr43599	transcription start site region 43599	933 bp upstream
Tssr43600	transcription start site region 43600	890 bp upstream
Tssr43601	transcription start site region 43601	723 bp upstream