rs253966278 SNP Detail

Summary

• ID
  rs253966278
• Variation Type
  SNP
• Alleles
  C/G

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

Genome Location and Flanking Sequence

• Location
  Chr5:29939848 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAAATGTCAT GTGGCAAGAG
  GCTTCAGCCA GACTCTGAGG CGAGGGGACT CCTTTCCCTA TTCTCTACCT TATAACTGGC
  TTTGTCTTTC GGCGCTGCTT CAATAGAAAG CTTGGGTTGC TGGGCTGTCA GCCCTGGAGT
  ATGCAAGCAC ACACACCTTC CACTCGTCAC TAGGCCAGAC TCCTTGATTC CTGCCATTGA
  S
  GGTGGTAGTG GGTAAGATTG AGAGCAGAAA GGTGGAAGGA GAGGTGGAGG AAGGTAAAGG
  AAAGGGCGGG AACTTTTGTG CTTAGTTTTC ATTTCAGTCT TGGACAGCCA TCTTGTAGGG
  CTGAAAGTCA ATTAGAAAAG AGATCTGGCC AAATTCTATG TTTCACAAAA GGGGAAGTGT
  AGTGTTTGGG AACCTTGGGG                                            
  
  S = C/G
  

  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss364407753	MGP_WTSI_5_30061390	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs253966278					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G

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
ss364407753	MGP_WTSI_5_30061390	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:29939848 () rs orientation: forward

Symbol	Name	Function Class
Cpgi15670	CpG island 15670	663 bp proximal
Del(5D5Mit348-D5Mit389)6Jcs	deletion, Chr 5, John C. Schimenti 6	within coordinates
Dnajb6	DnaJ heat shock protein family (Hsp40) member B6	1048 bp upstream
Gm5129	predicted gene 5129	484 bp downstream
Gm72214	predicted gene, 72214	1572 bp upstream
Rr377760	regulatory region 377760	395 bp upstream
Rr608877	regulatory region 608877	348 bp proximal
Rr608878	regulatory region 608878	918 bp proximal
Rr608879	regulatory region 608879	1583 bp proximal
Rr608880	regulatory region 608880	1822 bp proximal
Tssr45546	transcription start site region 45546	875 bp upstream
Tssr45547	transcription start site region 45547	889 bp upstream
Tssr45548	transcription start site region 45548	972 bp upstream
Tssr45549	transcription start site region 45549	987 bp upstream
Tssr45550	transcription start site region 45550	1117 bp upstream
Tssr45551	transcription start site region 45551	1141 bp upstream
Tssr45552	transcription start site region 45552	1262 bp upstream
Tssr45553	transcription start site region 45553	1601 bp upstream
Tssr50466	transcription start site region 50466	1033 bp downstream
Tssr50467	transcription start site region 50467	1052 bp downstream
Tssr50468	transcription start site region 50468	1078 bp downstream
Tssr50469	transcription start site region 50469	1562 bp downstream