rs46979588 SNP Detail

Summary

• ID
  rs46979588
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:23899801 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAATTCAGGG AGTGGACACA
  GAAGGTTCAG GAGTTCACAG CCAGCATCAG CTATGCAGGG AATTTATGGC CAGCCAGCCT
  GGGCTACATA AGACCCTTTC TCAGCTAAGA TATAAAAAAC AAAACTAAAC TAAAATCTAG
  ACACAACTGT CGCTATGGGC TGTCCTGTGC TTCAGGTATG TCTTATTTCC TGTCCCTTGC
  R
  TGAAAATCAA CAGGATTTCA TTCTCCACCT GTCACAGTCT AGGAAAGAAG TAAATGCTTA
  TTTTGCTCTT GACTGACCCA GGAAGTGTAT CTAATCCACA CTACAGGACA TAGCAGCCAA
  CTGTCAAGGT GCTTGGTGCT GGTATCAGCT GTCGAGGTGG GATGTCCAGA CATGCTGCTC
  TTTAACATGA CTCTCCTTTT                                            
  
  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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss397840261	MGP_WTSI_17_23817794	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	G	G	G	A	A	G	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	G	G	A	A	A	A	A	A	A	A	A	A	A	A
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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs46979588					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	G	G	G	A	A	G	A	A	A	A	G	A	A	A	A	A	G	A	A	A	A	A	G	G	A	A	A	A	A	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
ss397840261	MGP_WTSI_17_23817794	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:23899801 () rs orientation: forward

Symbol	Name	Function Class
Cldn6	claudin 6	within coordinates
Cldn9	claudin 9	1757 bp downstream
Cpgi8684	CpG island 8684	946 bp distal
Rr523108	regulatory region 523108	1158 bp distal
Rr523109	regulatory region 523109	837 bp distal
Tssr142943	transcription start site region 142943	1450 bp downstream
Tssr142944	transcription start site region 142944	1091 bp downstream
Tssr142945	transcription start site region 142945	1072 bp downstream
Tssr142946	transcription start site region 142946	211 bp upstream
Tssr142947	transcription start site region 142947	715 bp upstream
Tssr142948	transcription start site region 142948	968 bp upstream
Tssr146645	transcription start site region 146645	385 bp upstream