rs250540406 SNP Detail

Summary

• ID
  rs250540406
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr9:56981704 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGATTCGGGG GTGTTTGTTG
  ATACCGTGGT GGGAGTGCTG TACATTGTAT GGTAGGTACC CAGCCTGGTG GGTAAGGCAG
  TTCAGTTAAG GATAGGCATC TGTCAGTTTT GGAGTGCTAC TTCAGCCTGG AACGGTTTGG
  CTAGTTTTTC TTATTTTAGA GCACTGTCCT GGAACAGGGC TTGGCTTGGC TACCGGTGTG
  R
  CTGCTCCCAC CTGTCGGCCA CTCTTGGAGT TCACAACTCT TTACTATGGC CTCACGCCGT
  GAAGCCATCC TAGGAGTTAG ACCCACCTGT TGCCAACACT TGTTTATGGC AGTCTCCGCA
  GGATTTACAG GAGGACAGTA TTGGATTTAC GAAACGGTTC CCCGGTGTCG TATCTCCTGG
  GGACACTCGA CTCTAGGGAG                                            
  
  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	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	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
ss377681860	MGP_WTSI_9_56922227	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	A	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	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	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
rs250540406					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	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
ss377681860	MGP_WTSI_9_56922227	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:56981704 () rs orientation: forward

Symbol	Name	Function Class
2700012I20Rik	RIKEN cDNA 2700012I20 gene	783 bp downstream
Cpgi21807	CpG island 21807	218 bp distal
Cpgi21808	CpG island 21808	34 bp proximal
Cpgi21809	CpG island 21809	1255 bp proximal
Gm57026	predicted gene, 57026	within coordinates
Rr368762	regulatory region 368762	33 bp downstream
Rr401392	regulatory region 401392	754 bp upstream
Rr401393	regulatory region 401393	1516 bp upstream
Rr679581	regulatory region 679581	1962 bp distal
Rr679582	regulatory region 679582	1345 bp distal
Rr679583	regulatory region 679583	668 bp distal
Rr679584	regulatory region 679584	924 bp distal
Rr679585	regulatory region 679585	844 bp distal
Rr679586	regulatory region 679586	428 bp proximal
Rr679587	regulatory region 679587	929 bp proximal
Rr679588	regulatory region 679588	1414 bp proximal
Rr679589	regulatory region 679589	1606 bp proximal
Rr679590	regulatory region 679590	1990 bp proximal
Sin3a	transcriptional regulator, SIN3A (yeast)	Intron
Tssr2884	transcription start site region 2884	1015 bp upstream
Tssr85284	transcription start site region 85284	666 bp downstream
Tssr85285	transcription start site region 85285	548 bp downstream
Tssr85286	transcription start site region 85286	1923 bp upstream
Tssr85287	transcription start site region 85287	1975 bp upstream