rs27590025 SNP Detail

Summary

• ID
  rs27590025
• 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
  Chr4:130547351 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTAAGACTG TTTCAAAGAG
  AGAGGCAGAG ACAGAGAGAC AGGGAGAGAG GCCTGGTGTG GTCTGTACAT GGTCTTTCCT
  GACCATTTAG TTCTTAGAAT TCTGGAACAG TCCACAAGCC AGCTGCTCCG TGGTTGTCAT
  CGTCATGGCC TGAGGGTGAC TAAGTGGGTG CTGTGGGGAG ACACCTGGCT GCAGCCATTG
  Y
  AGGGCATTCT CCCTGAATAC TTCTCCAGCC CCGCCCCTCC CCATTCTGCT GACTGATCAC
  CTCTTTTTTC ATGTGAGGCA GAGGAAGCCA TGTTTCTAGG TTCCTTGGGT AGTAGTTGAA
  TCAGGATTCA AACACTGGCT GGCTGGGGCC CCTTGAGCTT AGGCTCCTAA GGGTGGGGGC
  CCCTGAAGCT TGGGGGTTTC                                            
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37753350	NES09165218	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T		T	T	T	T		T
ss321318851	CHEV_4_130375955	CHEVERUD	SCREENING_POP	f	SNP											T					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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27590025					SNP	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	C	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
ss37753350	NES09165218	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:130547351 () rs orientation: forward

Symbol	Name	Function Class
Sdc3	syndecan 3	within coordinates
Tssr39265	transcription start site region 39265	1434 bp downstream
Tssr39266	transcription start site region 39266	1412 bp downstream
Tssr39267	transcription start site region 39267	1393 bp downstream
Tssr39268	transcription start site region 39268	1363 bp downstream
Tssr39269	transcription start site region 39269	1326 bp downstream
Tssr39270	transcription start site region 39270	1297 bp downstream
Tssr39271	transcription start site region 39271	1252 bp downstream
Tssr39272	transcription start site region 39272	1236 bp downstream
Tssr39273	transcription start site region 39273	1181 bp downstream
Tssr39274	transcription start site region 39274	1139 bp downstream
Tssr39275	transcription start site region 39275	1123 bp downstream
Tssr39276	transcription start site region 39276	1087 bp downstream
Tssr39277	transcription start site region 39277	1070 bp downstream
Tssr39278	transcription start site region 39278	1059 bp downstream
Tssr43599	transcription start site region 43599	1331 bp upstream
Tssr43600	transcription start site region 43600	1288 bp upstream
Tssr43601	transcription start site region 43601	1121 bp upstream