rs259242399 SNP Detail

Summary

• ID
  rs259242399
• Variation Type
  SNP
• Alleles
  T

• 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
  Chr6:118947206 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCCCTCCC TCCCTCCCTC
  CCTCCCTCCC TCCCTCCCTC CCTCCCTCCC TCCCTCCCTC CCTCCCTCCG TCCCTCCCTC
  CCTCCTTCCT TCAGTTGCTT TTGCCAGGCA TCCTGCTGCA CCATGAGAAA GGTAAGCAGC
  ACAGTGGGCC TCTCTTCAGC AAGGGCTCTG TGTGTGTGTG TGTGGGGGGG GGGGTGGTGG
  T
  GGTAAAATGA AGGCCGAAGA GGGTTCAGGA ACTTTGGCAT CATGCTAAGA AGTAATAGTG
  GTGTCAGGAA GGACTCGGGA GTTGGGAGAC ACAAGGCAAT GTGGAAGTGA AGCACCTTGG
  CAGGCTCCTT AACCAAATTT TACAGGACTT ATAGCCCATG TGCCCTGAAT GGATGGGGAA
  GACAGGACAT ACCTGGCTTT                                            
  
  T = 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	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BTBR T<+> Itpr3/J	C57BL/6J	C57BL/10SnJ	C57L/J	C58/J	DBA/1J	DBA/2J	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	SEA/GnJ	SJL/J	SM/J	SWR/J	WSB/EiJ
ss369835352	MGP_WTSI_6_118920263	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BTBR T<+> Itpr3/J	C57BL/6J	C57BL/10SnJ	C57L/J	C58/J	DBA/1J	DBA/2J	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	SEA/GnJ	SJL/J	SM/J	SWR/J	WSB/EiJ
rs259242399					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T

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
ss369835352	MGP_WTSI_6_118920263	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:118947206 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cacna1c	calcium channel, voltage-dependent, L type, alpha 1C subunit			Intron
				Noncoding-Transcript-Variant
Rr637559	regulatory region 637559			1577 bp proximal
Tssr62671	transcription start site region 62671			1885 bp upstream