rs258750536 SNP Detail

Summary

• ID
  rs258750536
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:54600389 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCCGCCCCT TCCACTAGCA
  ACGCACCAAT CGGAAGCGCG GCCGCAGGAA GTGGCGGTTG GAGGTGTGGG TGGGCGTTAC
  AGCAGGCCTT AGGTGAGTTC TGCGGCCGGA GGTGGTGGGT GACTTAGGTG GGCTGGCCGG
  CGGGCTAGCG GGTGTCGGTC TAGTGTCGTG GAGCGGCCGG GATCTGAAGT GACGGGAGGA
  R
  GTCGATCCGC GTTTCGGAGA TTCCGGGGTT GGGCGGGCAC CTCGGCGGCC ATTCTGCGTG
  AACGCCCCTC CGCACTCCGC GGCGCCGCTC GCCTGCACTT TTGCTAATAG CTTGTTCTTT
  GGGCTCTGCT ACAGGTATTT CTGGAAAATC GCTGCAAGGT TGGCAGAATG CTTCTTCAGG
  GCGGAGTGCG GTGTGACTGT                                            
  
  R = A/G
  

  
  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
ss358013653	MGP_WTSI_3_54496890	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
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
rs258750536					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G

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
ss358013653	MGP_WTSI_3_54496890	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:54600389 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13172	CpG island 13172	within coordinates
Gm65558	predicted gene, 65558	307 bp upstream
Rr397672	regulatory region 397672	106 bp downstream
Rr576829	regulatory region 576829	346 bp distal
Rr576830	regulatory region 576830	within coordinates
Rr576831	regulatory region 576831	148 bp proximal
Rr576832	regulatory region 576832	1157 bp proximal
Supt20	SPT20 SAGA complex component	within coordinates
Tssr29131	transcription start site region 29131	168 bp downstream
Tssr29132	transcription start site region 29132	132 bp downstream
Tssr29133	transcription start site region 29133	100 bp downstream
Tssr29134	transcription start site region 29134	76 bp downstream
Tssr29135	transcription start site region 29135	66 bp upstream
Tssr29136	transcription start site region 29136	91 bp upstream
Tssr29137	transcription start site region 29137	120 bp upstream