rs259004933 SNP Detail

Summary

• ID
  rs259004933
• 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
  Chr1:152685342 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAAGGAAGT CAGGACTGGA
  CCTCAAGCAG GTCAGGAAGC AGGAGCTGAT GCAGAGGCCA TGGAGGGATG TTCTTTACTG
  GCTTGCTTCC ATTGGCTTGC TCAGCCTGCT CTCTTATAGA ACCAAGATTA CCAGCCCAGA
  GATGACACCA CCCACAAGGG CCTTTCCCCC TTGATCACTA ACTGAGAAAA TGCCTTACAG
  Y
  TGGATCTCAT GGAGGCATTT CCTCAACTGA AGCTCCTTTC TCTGTGATAA CTCCAGCTGT
  GTCAAGCTGA CACACAAAAC CAGCCAGTAC AGTCTCTTAT TGGCCCAGAT CTTGCACATT
  CGGTTCAGCT GGCTAGAAAG CCTGTCTCTG CCTCCCCAGC GCTAAGATTA GAAAGGATGT
  GATGTGACTC CACCCTTGTT                                            
  
  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	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	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SM/J	SPRET/EiJ	ST/bJ	WSB/EiJ
ss351957099	MGP_WTSI_1_154656721	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	C	T	T	T	C	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	C	T	C	C	T	C	T	T	C	C	C	C	T	C	T	T	T	T	C	C	T	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	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	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SM/J	SPRET/EiJ	ST/bJ	WSB/EiJ
rs259004933					SNP	T	T	T	T	C	T	T	T	C	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	C	T	C	C	T	C	T	T	C	C	C	C	T	C	T	T	T	T	C	C	T	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
ss351957099	MGP_WTSI_1_154656721	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:152685342 () rs orientation: forward

Symbol	Name	Function Class
Ncf2	neutrophil cytosolic factor 2	within coordinates
Rr13099	regulatory region 13099	259 bp proximal
Rr28716	regulatory region 28716	341 bp distal
Tssr9423	transcription start site region 9423	1801 bp downstream
Tssr9424	transcription start site region 9424	1765 bp downstream
Tssr9425	transcription start site region 9425	1715 bp downstream
Tssr9426	transcription start site region 9426	1693 bp downstream
Tssr9427	transcription start site region 9427	1675 bp downstream
Tssr9428	transcription start site region 9428	1657 bp downstream
Tssr9429	transcription start site region 9429	1632 bp downstream
Tssr9430	transcription start site region 9430	516 bp upstream
Tssr9431	transcription start site region 9431	1825 bp upstream
Tssr14234	transcription start site region 14234	1278 bp upstream
Tssr14235	transcription start site region 14235	333 bp downstream
Tssr14236	transcription start site region 14236	1018 bp downstream