rs253463899 SNP Detail

Summary

• ID
  rs253463899
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr5:100126382 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGCGAGGCCT AATGGCGGGG
  AGGGGGAGGG GGCCTGGCGA GCGGCTGCCC GGGGCCGCCC CTTACTCACC CTTCATCCTC
  CTCGTTCTTA CTGGCGTCGA TCTTGGCTCC CTCTGCCTCG GCGCTGCCTC CTTCGGTGCC
  TCCGGCCGCA GAGCCGCCGC CGCCGCTCCC GCTTCCCGCC GCCGCCGCCG GCCCCTGCGC
  Y
  GCCGCCGCCA CCATGGCTCC CTCCTGCTCG CCCGCCGAGC CGCCTACCGC CGCCGTTGCC
  GCCGCCGCCG CCCCGTCCCC TCCGAACTGC TCCTCCGACA TAGTGCTACT GCCGCCGCCG
  AAGACGACAC CCGCCGACGC CGCCGCCGCC GCGAACCGAA ACTAGCAGCA AAGTAATCCC
  CGCCGCCGCC GCGCGATGCC                                            
  
  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	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	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
ss366010030	MGP_WTSI_5_100407542	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	C	C	C	C	C	C	C	C	C	T	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	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
rs253463899					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	C	C	C	C	C	C	C	C	C	T	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
ss366010030	MGP_WTSI_5_100407542	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:100126382 () rs orientation: forward

Symbol	Name	Function Class
4930524J08Rik	RIKEN cDNA 4930524J08 gene	412 bp upstream
Cpgi16102	CpG island 16102	within coordinates
Gm17092	predicted gene 17092	within coordinates
Hnrnpd	heterogeneous nuclear ribonucleoprotein D	within coordinates
Rr378342	regulatory region 378342	within coordinates
Tssr47472	transcription start site region 47472	within coordinates
Tssr47473	transcription start site region 47473	48 bp upstream
Tssr47474	transcription start site region 47474	146 bp upstream
Tssr52063	transcription start site region 52063	1930 bp upstream
Tssr52064	transcription start site region 52064	325 bp downstream
Tssr52065	transcription start site region 52065	379 bp downstream
Tssr52066	transcription start site region 52066	391 bp downstream