rs258590486 SNP Detail

Summary

• ID
  rs258590486
• 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
  Chr15:101166415 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCAGCACC CTCTGCCTCA
  GCACCCTCTG CCTCAGCACC CTCTGCCTCA GCACCCTCTG CCTCAGCACC CTCTGCCCCA
  GCACCCTCTG CCCCAGCACC CTCTGCCTCA GCACCCTCTG CCTCAGCACC CTCTGCCTCA
  GCACCCTCTG CCTCAGCACC CTCTGCCTCA GCACCCTCTG CCTCAGTGTT CCTGTGTGAC
  Y
  TGTCTTTTCA ACTAGAAAGT CTAGAACTGT ACAGACCCCA GAGTTGGAGG TGGAAAGGGA
  CACTAGGTCC TGGAGCCTCC TCTGTGGGCT TTTTTGACCA GATGAGAACG TAAGGGCCTC
  CTCCAGCTAC CCCTGGTCAT TCAGGTGCTT CAGGTTTGTG ACCTTTGCTG AGACCCTGGA
  TGCTGCAGCA AACAGACATC                                            
  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss395192958	MGP_WTSI_15_101098965	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	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258590486					SNP	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	C	C	T	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
ss395192958	MGP_WTSI_15_101098965	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr15:101166415 () rs orientation: forward

Symbol	Name	Function Class
Cpgi7777	CpG island 7777	1286 bp distal
Gm63176	predicted gene, 63176	1866 bp upstream
Nr4a1	nuclear receptor subfamily 4, group A, member 1	within coordinates
Rr370021	regulatory region 370021	574 bp downstream
Rr509998	regulatory region 509998	1991 bp distal
Rr510000	regulatory region 510000	1678 bp distal
Rr510001	regulatory region 510001	1819 bp distal
Rr510002	regulatory region 510002	within coordinates
Rr510003	regulatory region 510003	1326 bp distal
Tssr133214	transcription start site region 133214	1675 bp downstream
Tssr133215	transcription start site region 133215	1422 bp downstream
Tssr133216	transcription start site region 133216	1391 bp downstream
Tssr133217	transcription start site region 133217	1288 bp downstream
Tssr133218	transcription start site region 133218	660 bp downstream
Tssr133219	transcription start site region 133219	638 bp downstream
Tssr133220	transcription start site region 133220	543 bp downstream
Tssr133221	transcription start site region 133221	483 bp downstream
Tssr133222	transcription start site region 133222	853 bp upstream
Tssr133223	transcription start site region 133223	1542 bp upstream
Tssr133224	transcription start site region 133224	1585 bp upstream
Tssr133225	transcription start site region 133225	1596 bp upstream
Tssr133226	transcription start site region 133226	1617 bp upstream
Tssr133227	transcription start site region 133227	1625 bp upstream
Tssr133228	transcription start site region 133228	1643 bp upstream
Tssr133229	transcription start site region 133229	1654 bp upstream
Tssr133230	transcription start site region 133230	1732 bp upstream
Tssr133231	transcription start site region 133231	1764 bp upstream
Tssr133232	transcription start site region 133232	1783 bp upstream
Tssr133233	transcription start site region 133233	1811 bp upstream
Tssr133234	transcription start site region 133234	1829 bp upstream
Tssr133235	transcription start site region 133235	1862 bp upstream
Tssr133236	transcription start site region 133236	1911 bp upstream
Tssr133237	transcription start site region 133237	1933 bp upstream
Tssr133238	transcription start site region 133238	1966 bp upstream
Tssr136544	transcription start site region 136544	1970 bp upstream
Tssr136545	transcription start site region 136545	1765 bp downstream
Tssr136546	transcription start site region 136546	1887 bp downstream
Tssr136547	transcription start site region 136547	1963 bp downstream
Tssr136548	transcription start site region 136548	1973 bp downstream