rs108439459 SNP Detail

Summary

• ID
  rs108439459
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  132
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:23899621 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGTGGGCCT GAAACTTGTA
  TCGAGAGCCC GACCAATCCA AAATTATACT CCCGACATGT CATTGTCTTT GTTCTGATAA
  AATGTACCTA AGGATGTGAC TCAGCTCCTA GACCGCTTGC CTGGCGTGCA AAAAGCCGAA
  GCCCTGCCTT ACCCCTCTGG TGGTAAACCC TGCAGTCCCC GAATTCAGGG AGTGGACACA
  K
  AAGGTTCAGG AGTTCACAGC CAGCATCAGC TATGCAGGGA ATTTATGGCC AGCCAGCCTG
  GGCTACATAA GACCCTTTCT CAGCTAAGAT ATAAAAAACA AAACTAAACT AAAATCTAGA
  CACAACTGTC GCTATGGGCT GTCCTGTGCT TCAGGTATGT CTTATTTCCT GTCCCTTGCA
  TGAAAATCAA CAGGATTTCA                                            
  
  K = G/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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss397840257	MGP_WTSI_17_23817614	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	T	T	T	G	G	T	G	G	G	G	T	G	G	G	G	G	T	G	G	G	G	G	T	T	G	G	G	G	G	G	G	G	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs108439459					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	T	T	T	G	G	T	G	G	G	G	T	G	G	G	G	G	T	G	G	G	G	G	T	T	G	G	G	G	G	G	G	G	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
ss397840257	MGP_WTSI_17_23817614	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:23899621 () rs orientation: forward

Symbol	Name	Function Class
Cldn6	claudin 6	within coordinates
Cldn9	claudin 9	1937 bp downstream
Cpgi8684	CpG island 8684	766 bp distal
Rr523108	regulatory region 523108	978 bp distal
Rr523109	regulatory region 523109	657 bp distal
Tssr142943	transcription start site region 142943	1270 bp downstream
Tssr142944	transcription start site region 142944	911 bp downstream
Tssr142945	transcription start site region 142945	892 bp downstream
Tssr142946	transcription start site region 142946	391 bp upstream
Tssr142947	transcription start site region 142947	895 bp upstream
Tssr142948	transcription start site region 142948	1148 bp upstream
Tssr146645	transcription start site region 146645	205 bp upstream