rs225616509 SNP Detail

Summary

• ID
  rs225616509
• 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
  Chr3:104960135 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCTGGGCAAA AGGCGACCTA
  GAGTGAGACA GGTCAGGAGG AGACCCCTGC TGAGGGGCGG AGGCTAGCGA GAGACAATGA
  ACAATCGTAA AGACCCCGGA GGATGCCGCG ACGCCTCCTT GGGGAATCCC GGGATCTGGA
  GGCGGCGGCC CCGCCCCCTA GGGGGACCAT CCCTACCCCG ACAGGGACTT CTGCTGAAAG
  Y
  CACTCACGCT CCGGGCCAGG AGGCTCTCTC GGAGACCCGG CTCCCCCGGC ACCGCAGAGC
  CCCGAGCCCA CGCTCCGTAC CTGGCCTCGG CGCTCCGGGA TCCTTCCCCG CCGCCGCCTC
  CGCCGCCCGC TCCCCATCCC CAGCCTCCCA GGACCCGCCC CTTACCCGCC GGCGGCAGTG
  ACAGGCAGAT ACCCTCGCCA                                            
  
  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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359101366	MGP_WTSI_3_104855737	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	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	T	T	C	T	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs225616509					SNP	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	T	C	C	C	C	T	C	C	C	T	T	C	T	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
ss359101366	MGP_WTSI_3_104855737	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:104960135 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13657	CpG island 13657			within coordinates
Cttnbp2nl	CTTNBP2 N-terminal like			Intron
				mRNA-UTR
				Splice-Site
Rr367520	regulatory region 367520			222 bp upstream
Rr582659	regulatory region 582659			within coordinates
Rr582660	regulatory region 582660			122 bp proximal
Rr582661	regulatory region 582661			1721 bp proximal
Tssr34913	transcription start site region 34913			245 bp upstream
Tssr34914	transcription start site region 34914			102 bp upstream
Tssr34915	transcription start site region 34915			97 bp downstream
Tssr34916	transcription start site region 34916			129 bp downstream
Tssr34917	transcription start site region 34917			306 bp downstream