rs238272980 SNP Detail

Summary

• ID
  rs238272980
• Variation Type
  SNP
• Alleles
  C/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
  Chr17:25651535 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACACACCCA GCTGTGCGTG
  ACTTAAATCA GCCCCTGAAC GGACTTCAGC CTGGAAAAGT GAGTTCTCAA ACCAACGTCA
  CTTCGAGGAG AACCAGGGAG CAGCCCTGCC CGGCACACAG CGCCAATGAG CAGGTGGAAA
  CTTTCTCCCT TTCCGGCCCC CAGACTCCAG CGAGGGTCTT CACACAGGCT CAGGTGTTTC
  S
  TTTGGAAAGC TAAGAAGGCG GGGATTCCCA TCTTTCCCCC CATCCCCCGC CCCAGTAGGA
  CTCCTGGAGT TAACTACCTT TCATTTCCTT CCACCGGCGG CATCCTCGCC GCTTCTGCTC
  ATACTCTCCC GTCCCGAGGT GCCTCTGAAC CCAGATTCCA CAGGCTAACC CTACCATCTC
  TGAGAAGAAC GCCGCCCTAG                                            
  
  S = C/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
ss397877207	MGP_WTSI_17_25569506	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	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/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
rs238272980					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	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
ss397877207	MGP_WTSI_17_25569506	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:25651535 () rs orientation: forward

Symbol	Name	Function Class
Cacna1h	calcium channel, voltage-dependent, T type, alpha 1H subunit	within coordinates
Cpgi8763	CpG island 8763	within coordinates
Gm65272	predicted gene, 65272	1133 bp upstream
Rr523569	regulatory region 523569	315 bp proximal
Rr523570	regulatory region 523570	707 bp proximal
Rr523571	regulatory region 523571	1212 bp proximal
Rr523572	regulatory region 523572	1507 bp proximal
Rr523573	regulatory region 523573	1673 bp proximal
Rr523574	regulatory region 523574	1803 bp proximal
Tssr146839	transcription start site region 146839	702 bp downstream
Tssr146840	transcription start site region 146840	993 bp downstream
Tssr146841	transcription start site region 146841	1050 bp downstream
Tssr146842	transcription start site region 146842	1181 bp downstream
Tssr146843	transcription start site region 146843	1214 bp downstream