rs260780277 SNP Detail

Summary

• ID
  rs260780277
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr6:21986155 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGTGTGCAGC TGGCACGCGC
  GTGTCTCCGC GAGTCTGCGC GTGTCTGTCC GTGCGTGAGA GTGAGATGAA GCGGAGTCCT
  ACGCCTGGGT GTTTCCTTCC AAGTGATTTT GATCAGCAAT CCATTAGGGG ATCATGAAAA
  AAAAAAAATC TGGCTAAAAG GATGAAAACT GAGTAAGTAC ACAGAACTTT GAACTTGAAA
  Y
  GGAATGAGAC CAAACGCAAG CAAAGCCCTG ACAGTAACCA CATACAGCCA AACTGCTATC
  CCCCTTTTTT ATGTTAAAAG CCGTGAATGC TAGCAGCAAA GTGGCAATTT AAAACTGAAC
  GAAAGGAAGC AGCAGTTCTA CAACATAAAA GGCTGGGAGC GGGATGGCTT TAAAACCGGA
  GGGAAAATGA GAAACTGCTA                                            
  
  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	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	LEWES/EiJ	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
ss367640489	MGP_WTSI_6_21936156	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C
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	LEWES/EiJ	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
rs260780277					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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
ss367640489	MGP_WTSI_6_21936156	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:21986155 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cped1	cadherin-like and PC-esterase domain containing 1			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Cpgi17190	CpG island 17190			87 bp distal
Rr627034	regulatory region 627034			1055 bp distal
Rr627035	regulatory region 627035			230 bp distal
Rr627036	regulatory region 627036			within coordinates
Tssr1788	transcription start site region 1788			97 bp upstream
Tssr55139	transcription start site region 55139			184 bp downstream
Tssr55140	transcription start site region 55140			164 bp downstream
Tssr55141	transcription start site region 55141			6 bp downstream
Tssr55142	transcription start site region 55142			within coordinates
Tssr55143	transcription start site region 55143			25 bp upstream
Tssr55144	transcription start site region 55144			195 bp upstream
Tssr55145	transcription start site region 55145			222 bp upstream
Tssr55146	transcription start site region 55146			282 bp upstream
Tssr55147	transcription start site region 55147			731 bp upstream
Tssr55148	transcription start site region 55148			814 bp upstream