rs29639650 SNP Detail

Summary

• ID
  rs29639650
• 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
  Chr3:28319577 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        AGGCCACATT CAGAACCAGT GAGTAGCTAA GTGTGGGGGT
  TGGGAGCAGA GTGGGTGCTT TAAACAAGCG CGGCTTCCTC TTCACCCATG GTGTGTGCTC
  Y
  ACTTCTGTCT GGGAGTTGCT ATGGTGTGAG TTAATCAGGT GGACCAGACT TGGAGAAGGA
  GGAGTGGCTA AGAGGTGGAG GCCTGAACAA TGAGGCAGC                       
  
  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	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss46866528	NES10823069	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	C	T	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs29639650					SNP	T	T	T	T	T	C	T	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
ss46866528	NES10823069	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:28319577 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13025	CpG island 13025			1405 bp distal
Gm54170	predicted gene, 54170			within coordinates
Gm56802	predicted gene, 56802			183 bp upstream
Rr574555	regulatory region 574555			1775 bp distal
Rr574556	regulatory region 574556			1224 bp distal
Rr574557	regulatory region 574557			243 bp distal
Rr574558	regulatory region 574558			within coordinates
Tnik	TRAF2 and NCK interacting kinase			Intron
				Noncoding-Transcript-Variant
Tssr28647	transcription start site region 28647			2000 bp downstream
Tssr28648	transcription start site region 28648			1991 bp downstream
Tssr28649	transcription start site region 28649			1851 bp downstream
Tssr32865	transcription start site region 32865			1179 bp upstream
Tssr32866	transcription start site region 32866			181 bp upstream