rs108439656 SNP Detail

Summary

• ID
  rs108439656
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr17:23897708 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTTTTGTGAC AAGGTTTCAC
  TGTGCCCTGA CTGTCCTGGA ACTCACGTTG TAGACCAGGC TGGCCTCAAA CTCACAGAGA
  TCCGCTTGCC TCTCCCTTCC CAGCCCTGGT ATTAAAGGCA TGTGTCACCA CGCCTGGCCA
  TATATGTTGC TTTCTGTTGC TTTCTTTCTT TTCTTTCTTT CTTTCTTTCT TTCTTTCTTT
  Y
  TTTTTTTTTC TCCAAAACGA GTCTCTCTGT ATAGCCCTGG CTGTCCTGGA ACTCTCTCTG
  AAGACCAGGC TAGCCTCTAA CTCAGAAATC CGCCTGCCTC TGCCTCCCAA CTGCTGGGAT
  TAAAGGCGTG AGCCACCATT GCCCGGCTAT ATATTGCTTT CTTAAGGGCC TCGGGAAGAG
  CACGAGATGA TTCAGTGGGT                                            
  
  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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	JF1/MsJ	KK/HlJ	LEWES/EiJ	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SM/J	SPRET/EiJ	ST/bJ	SWR/J
ss130539628	NCBIM37_NT_039649_chr17_23815701	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	T	C	C	C	T	C	C	C	T	T	T	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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	JF1/MsJ	KK/HlJ	LEWES/EiJ	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SM/J	SPRET/EiJ	ST/bJ	SWR/J
rs108439656					SNP	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	T	C	C	C	T	C	C	C	T	T	T	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
ss130539628	NCBIM37_NT_039649_chr17_23815701	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:23897708 () rs orientation: forward

Symbol	Name	Function Class
Cldn6	claudin 6	637 bp upstream
Cpgi8683	CpG island 8683	1106 bp distal
Cpgi8684	CpG island 8684	558 bp proximal
Rr523107	regulatory region 523107	776 bp distal
Rr523108	regulatory region 523108	182 bp proximal
Rr523109	regulatory region 523109	936 bp proximal
Tnfrsf12a	tumor necrosis factor receptor superfamily, member 12a	1285 bp upstream
Tssr142943	transcription start site region 142943	629 bp upstream
Tssr142944	transcription start site region 142944	938 bp upstream
Tssr142945	transcription start site region 142945	1003 bp upstream
Tssr146643	transcription start site region 146643	1278 bp upstream
Tssr146644	transcription start site region 146644	1250 bp upstream
Tssr146645	transcription start site region 146645	1696 bp downstream