rs30509871 SNP Detail

Summary

• ID
  rs30509871
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:126391917 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTTTGCACT AAGATGAGTC
  GCTCACCATC ATTCTAGGAT TTAGGTGTAC ATCGTCTCTG AGAGGATTTA TTTATCCAGG
  CAGAGGAAAG CCCTAGAGCC CGAGAGAGCG TTTCCCCAGG GTAGCCTAGC TTGTGTAAAA
  CGACCTCCTC CACTGAAGTG GCAGGACTTC CTTGAGATGT TAAGGAGGGA CAGGGTACCT
  W
  CTGAAGATCT GCACAGGGGC AACTAGAGAC TCAGTCAGGA GGGAGTGTTG GTTTACCGAG
  CATCAAACCC CAAACCTATC GCTAATTTCC ACTATCAGGG AAGGGATGCA TTTGTGTGTG
  TGTGTGTGTG TGTGCTGTAG GTTTCCTTAC AGTTGCATAA AAGGAAGTGT GAGCACTTTT
  AAATCAAATG AAAATGATAT                                            
  
  W = A/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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss46955401	NES10678788	PERLEGEN	MM_PANEL2	f	SNP	T	T	A	T	A	A	A	A	A		T	A	A	T		T
ss135836853	ENSMUSSNP4117281	ENSEMBL	ENSEMBL_Sanger	f	SNP							A
ss320946587	CHEV_3_126301186	CHEVERUD	SCREENING_POP	f	SNP										A					T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs30509871					SNP	T	T	A	T	A	A	A	A	A	A	T	A	A	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
ss46955401	NES10678788	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:126391917 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Camk2d	calcium/calmodulin-dependent protein kinase II, delta			Intron
				Noncoding-Transcript-Variant
Cpgi13785	CpG island 13785			214 bp distal
Gm17225	predicted gene 17225			within coordinates
Gm43011	predicted gene 43011			1761 bp upstream
Rr367547	regulatory region 367547			1804 bp downstream
Rr397994	regulatory region 397994			1018 bp upstream
Rr584646	regulatory region 584646			844 bp distal
Rr584647	regulatory region 584647			1361 bp distal
Rr584648	regulatory region 584648			1249 bp distal
Rr584649	regulatory region 584649			within coordinates
Rr584650	regulatory region 584650			1094 bp proximal
Tssr31566	transcription start site region 31566			1925 bp downstream
Tssr31567	transcription start site region 31567			1896 bp downstream
Tssr31568	transcription start site region 31568			1849 bp downstream
Tssr31569	transcription start site region 31569			1414 bp downstream
Tssr31570	transcription start site region 31570			1282 bp downstream
Tssr31571	transcription start site region 31571			1230 bp downstream
Tssr31572	transcription start site region 31572			1155 bp downstream
Tssr31573	transcription start site region 31573			1014 bp downstream
Tssr31574	transcription start site region 31574			855 bp downstream
Tssr31575	transcription start site region 31575			833 bp downstream