rs30942612 SNP Detail

Summary

• ID
  rs30942612
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:90521082 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        CTCAGGCAGG GGGGTGGTGA GAGAACTCTC TGCTATCAGC
  AGCACTGACT AGCCCCTCTG TCAAACAGCT TCTTCTAGCC CAGTGATCAG TCATGGCATG
  Y
  CCTCTGGATC AGGCCATTGG CCTTCTCGTG GCCATCTTCC ACAAGTACTC TGGCAAGGAA
  GGTGACAAGC ACACCCTGAG CAAGAAGGAG CTGAAGGAG                       
  
  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	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss45482606	mCV24984927	ABI	CRAMUS_MOUSE	f	SNP		C	C					C		T
ss60424269	NES15923480	PERLEGEN	MM_PANEL2	f	SNP	C		C	C	C	C	C		C	T	C	T		C	C	C	C		C
ss135477199	ENSMUSSNP5993469	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	C							T
ss320838153	CHEV_3_90417697	CHEVERUD	SCREENING_POP	f	SNP													C					T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs30942612					SNP	C	C	C	C	C	C	C	C	C	T	C	T	C	C	C	C	C	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
ss60424269	NES15923480	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90521082 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13468	CpG island 13468			409 bp distal
Gm57853	predicted gene, 57853			mRNA-UTR
				Noncoding-Transcript-Variant
Rr397814	regulatory region 397814			1646 bp upstream
Rr580416	regulatory region 580416			1392 bp distal
Rr580417	regulatory region 580417			460 bp distal
Rr580418	regulatory region 580418			966 bp distal
Rr580419	regulatory region 580419			1807 bp proximal
S100a5	S100 calcium binding protein A5			1995 bp downstream
S100a6	S100 calcium binding protein A6 (calcyclin)			Coding-Synonymous
				Intron
				Noncoding-Transcript-Variant
				Noncoding-Transcript-Variant
Tssr30242	transcription start site region 30242			1479 bp downstream
Tssr30243	transcription start site region 30243			910 bp downstream
Tssr30244	transcription start site region 30244			894 bp downstream
Tssr30245	transcription start site region 30245			796 bp downstream
Tssr30246	transcription start site region 30246			618 bp downstream
Tssr30247	transcription start site region 30247			583 bp downstream
Tssr30248	transcription start site region 30248			483 bp downstream
Tssr30249	transcription start site region 30249			239 bp downstream
Tssr30250	transcription start site region 30250			6 bp downstream
Tssr30251	transcription start site region 30251			within coordinates
Tssr30252	transcription start site region 30252			571 bp upstream
Tssr30253	transcription start site region 30253			595 bp upstream
Tssr34246	transcription start site region 34246			636 bp downstream