rs27590009 SNP Detail

Summary

• ID
  rs27590009
• 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
  Chr4:130549349 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGCTAATCT CCGACCTGTC
  TTCTGGCCTG ACCTTTAACC CAGCCTTTAC CCAAGACCTT GAAGGCTTTA CCCTGGTGGG
  ACTTGGGATC CAACTGGCTC TCCTATCGAG GTTCCCATCT CCTCTTGGAG ACAGCGGGTG
  GTGGTCTGGC AGTGTGGGGG AGGGGCCTTC CCTTCCTAAT AGTTTTGAGG AAGTGAGGCA
  Y
  CTGATGTTTG ATACTGACAA GGACCAGGTC ACCTGCCTCT ATCCTAGGGA TGCAAAGTCA
  TTGCTGAGCC ATTGGAAAGG ACTTGGGGAC TGTAGGTGAT ACCAGCGCTG TCCTTACTGG
  TATTCTGTCT CTGACTCCAG GCCCAGGAGG ATGCCTAGCC TGCTAACACC CAACCTTTTA
  ATTAATTAAT TAATTAATTA                                            
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37753334	NES09165166	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27590009					SNP	C	C	C	C	C	C	T	C	C	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
ss37753334	NES09165166	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:130549349 () rs orientation: forward

Symbol	Name	Function Class
Sdc3	syndecan 3	within coordinates
Tssr39279	transcription start site region 39279	142 bp upstream
Tssr39280	transcription start site region 39280	618 bp upstream
Tssr39281	transcription start site region 39281	684 bp upstream
Tssr39282	transcription start site region 39282	1004 bp upstream
Tssr39283	transcription start site region 39283	1074 bp upstream
Tssr39284	transcription start site region 39284	1275 bp upstream
Tssr39285	transcription start site region 39285	1345 bp upstream
Tssr39286	transcription start site region 39286	1412 bp upstream
Tssr39287	transcription start site region 39287	1438 bp upstream
Tssr39288	transcription start site region 39288	1473 bp upstream
Tssr39289	transcription start site region 39289	1602 bp upstream
Tssr39290	transcription start site region 39290	1609 bp upstream
Tssr39291	transcription start site region 39291	1757 bp upstream
Tssr39292	transcription start site region 39292	1834 bp upstream