rs6376539 SNP Detail

Summary

• ID
  rs6376539
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr5:30805213 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGACCCCGAG CGCCCATTTT
  ACAAACCGGG AGGCCAAGAG GCTGGGAGCG TACGCTGCAG AAGTACAGGG CTCGCTCAGC
  ATGCATGAGA CACTAGCACT ACAAAAAGAA AAGGAAGCCG AGCAATGGAA AAGAAAAGAA
  AATCTGGTAG CCTTGGCCCG GGACCCTGCA CTCTGCTTCT CCAGCTCTCC TACCAAAGAC
  Y
  GGTGGCAGCT CCGGGGCGGG GCTAGCGGGC GTGGGGCGTG GGCCAGTGGG GTCATGTGAC
  TCCCGGCCCG GAAGTTCTTG AGTAGGAGAC TCCACATCCC GGGTGACCCG GGTTGGAGCT
  GCTGATTCAA GTGGTCTCTC GTGTCCACCA CTATGGCCTG GACTAAGTAC CAGTTGTTCC
  TGGCCGGGCT TATGCTGGTC                                            
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/10J	C57BLKS/J	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	DDK/Pas	FVB/NJ	I/LnJ	JF1/Ms	KK/HlJ	LG/J	LP/J	MA/MyJ	MAI/Pas	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZW/LacJ	PERA/EiJ	PL/J	PWD/Ph	RIIIS/J	SEA/GnJ	SEG/Pas	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss8782688	WI_WGS_5_29307260	WI	MOUSE	f	SNP									C									T
ss16375927	05.028.870	TWGNF	TWGNF-Mouse-2	f	SNP	T	T	C	T	C	T	C	C	C	C	C	C	C	C	T	C	T	T	C	C	C	C	C	T	C	C	T	C	T	T	T	C	C	C	C	T	C	T	T	C	T	T	C	T	C	C	T	T
ss45790292	mCV25292948	ABI	CRAMUS_MOUSE	f	SNP	T		C						C											C
ss148186591	ENSMUSSNP890224	ENSEMBL	ENSEMBL_Sanger	f	SNP			C																	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/10J	C57BLKS/J	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	DDK/Pas	FVB/NJ	I/LnJ	JF1/Ms	KK/HlJ	LG/J	LP/J	MA/MyJ	MAI/Pas	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZW/LacJ	PERA/EiJ	PL/J	PWD/Ph	RIIIS/J	SEA/GnJ	SEG/Pas	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs6376539					SNP	T	T	C	T	C	T	C	C	C	C	C	C	C	C	T	C	T	T	C	C	C	C	C	T	C	C	T	C	T	T	T	C	C	C	C	T	C	T	T	C	T	T	C	T	C	C	T	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:30805213 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15682	CpG island 15682	within coordinates
D5Mit389	DNA Segment, Chr 5 Massachusetts Institute of Technology 389	575 bp distal
Del(5D5Mit348-D5Mit389)6Jcs	deletion, Chr 5, John C. Schimenti 6	575 bp distal
Mir5625	microRNA 5625	67 bp upstream
Rr609028	regulatory region 609028	within coordinates
Rr609029	regulatory region 609029	1732 bp proximal
Slc35f6	solute carrier family 35, member F6	64 bp upstream
Tssr45603	transcription start site region 45603	52 bp upstream
Tssr45604	transcription start site region 45604	66 bp upstream
Tssr45605	transcription start site region 45605	136 bp upstream