rs39053340 SNP Detail

Summary

• ID
  rs39053340
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr19:44382299 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCAGGTGGA TTTCTGAGTT
  CAAGGCCAGC CTGGTCTACA AAGTGAGTTC CAGGACAGCC AGGGCTACAC AGAGAAATCC
  ATCCTGTCTG GGAAAAAAAA AAAAAAAGAA CAAAGCAAAC ACACACTAAC CTCCCCATTC
  CACCCCGCCC CCCCAACCTC CCTGCAAAAC CCACACCATC CATCTTGAGA CCATGATACC
  Y
  TTTCTACTCT GGGGACTTGC AAACCTCTCT GGACTATTAG CTTTCATCCA AGTGTGAGAA
  AGCACCCAGG GGCTTCCTGT CCCCTGAAGG CAGGACATTC CAGGAAGAGG AGTGAGCATG
  ACTTCCCAGG GCTGGGGTAA CAGTTCTTCA TGTACCTGTG TGCTGCGTCC ATGTGGCCAC
  CATGTGACAG TGGAGACCTG                                            
  
  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
ss50801842	NES13525197	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	T	T
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
rs39053340					SNP	T	T	T	T	T	T	C	T	T	T	C	T	T	T	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
ss50801842	NES13525197	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr19:44382299 () rs orientation: forward

Symbol	Name	Function Class
Rr548236	regulatory region 548236	167 bp proximal
Rr548237	regulatory region 548237	802 bp proximal
Scd1	stearoyl-Coenzyme A desaturase 1	590 bp downstream
Tssr159446	transcription start site region 159446	722 bp downstream
Tssr159447	transcription start site region 159447	899 bp downstream
Tssr159448	transcription start site region 159448	931 bp downstream
Tssr159449	transcription start site region 159449	983 bp downstream
Tssr159450	transcription start site region 159450	1010 bp downstream
Tssr159451	transcription start site region 159451	1082 bp downstream
Tssr159452	transcription start site region 159452	1372 bp downstream
Tssr159453	transcription start site region 159453	1431 bp downstream
Tssr159454	transcription start site region 159454	1463 bp downstream
Tssr159455	transcription start site region 159455	1756 bp downstream
Tssr159456	transcription start site region 159456	1878 bp downstream
Tssr159457	transcription start site region 159457	1922 bp downstream
Tssr159458	transcription start site region 159458	1952 bp downstream