rs253541807 SNP Detail

Summary

• ID
  rs253541807
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:156269189 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGTTTGTC GGTGAAAGGT
  CTCCCTAGCC TGTTTTCCTC AGAAGCCACA CTACCAAGTA TGCCCAGGGG AAGATTTCCT
  TTCCCATTGG ATATAAATTG ATGACCAGTC AAGCTTAGCG CTAAACAGGG CTCCCTGCCC
  TGCCTTGCTC TTCACTTCCC ATAGACCCAC CTACACTGTC CCCCTGCCTC CCCCCCCCAA
  M
  AAAAAAAACC TGGCTTGCTT TGCCAATATC CCTGGAAGAT CTTCACTCTC TCCACTGGGT
  GGTAGTTTGC TTTTGAGTAC AGATTACAGG GAGCCAGTAT AATACATGCA TGTCTAAGGT
  GGGGAAGAAT GCTTATTTAT GGTTGAAACA GGCAACGTTT TAAATTTAAG GATGTAGGTT
  TCAGGCATGA CTTAAAGCTT                                            
  
  M = A/C
  

  
  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	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BTBR T<+> Itpr3/J	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CBA/J	CE/J	DBA/1J	DBA/2J	FVB/NJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	ZALENDE/EiJ
ss360368068	MGP_WTSI_3_156226516	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	C	A	A	A	C	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BTBR T<+> Itpr3/J	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CBA/J	CE/J	DBA/1J	DBA/2J	FVB/NJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	ZALENDE/EiJ
rs253541807					SNP	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	C	A	A	A	C	A	A	A	A	A	A	A	A	A	C	A	A	A	A	A	A	A

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
ss360368068	MGP_WTSI_3_156226516	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:156269189 () rs orientation: forward

Symbol	Name	Function Class
4930570G19Rik	RIKEN cDNA 4930570G19 gene	1806 bp upstream
Cpgi13974	CpG island 13974	918 bp distal
Negr1	neuronal growth regulator 1	Intron
Rr587959	regulatory region 587959	1910 bp distal
Rr587960	regulatory region 587960	1573 bp distal
Rr587961	regulatory region 587961	within coordinates
Rr587962	regulatory region 587962	1426 bp distal
Tssr32476	transcription start site region 32476	1683 bp downstream
Tssr32477	transcription start site region 32477	1559 bp downstream
Tssr32478	transcription start site region 32478	1419 bp downstream
Tssr32479	transcription start site region 32479	1356 bp downstream
Tssr32480	transcription start site region 32480	862 bp downstream
Tssr32481	transcription start site region 32481	756 bp downstream
Tssr36286	transcription start site region 36286	1777 bp upstream