rs29644899 SNP Detail

Summary

• ID
  rs29644899
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:28317691 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GAGGC TGGGCCCCGG GCCTCTCTGG
  Y
  GGACAGCCGC ATGAGGACGC GAGCG                                      
  
  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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	LG/J	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss46866498	NES10823227	PERLEGEN	MM_PANEL2	f	SNP	C		C	C	C	T		T		T	C	C		C
ss134712133	ENSMUSSNP2590485	ENSEMBL	ENSEMBL_Sanger	f	SNP		T					T
ss320690650	CHEV_3_28162464	CHEVERUD	SCREENING_POP	f	SNP									T				C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	LG/J	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs29644899					SNP	C	T	C	C	C	T	T	T	T	T	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
ss46866498	NES10823227	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:28317691 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm54170	predicted gene, 54170			within coordinates
Gm56802	predicted gene, 56802			within coordinates
Rr574555	regulatory region 574555			within coordinates
Rr574556	regulatory region 574556			112 bp proximal
Rr574557	regulatory region 574557			663 bp proximal
Rr574558	regulatory region 574558			1686 bp proximal
Tnik	TRAF2 and NCK interacting kinase			mRNA-UTR
				Noncoding-Transcript-Variant
Tssr28643	transcription start site region 28643			328 bp downstream
Tssr28644	transcription start site region 28644			209 bp downstream
Tssr28645	transcription start site region 28645			156 bp downstream
Tssr28646	transcription start site region 28646			129 bp downstream
Tssr28647	transcription start site region 28647			114 bp downstream
Tssr28648	transcription start site region 28648			105 bp downstream
Tssr28649	transcription start site region 28649			25 bp upstream
Tssr32865	transcription start site region 32865			693 bp downstream
Tssr32866	transcription start site region 32866			1688 bp downstream