rs29688398 SNP Detail

Summary

• ID
  rs29688398
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr3:108818001 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAGAAAGAA GCCCAGGGCC
  CAGAGCATTC TAATTATGCC CAACGCACAG GTGGCTGACA CCTTCGACTC CTGACTTCCT
  GCTGGGAAAA ATTTCCAGGC CTTCTGTACA CCTCTTTTGC CCTGGCACTC CACGCCACCC
  TCAACCCTCC CGGCCCACCC GACACACTCA CTGGCCAATT TCTGTCGGGA TTGGAGAGCT
  Y
  AACGAAGAGC ACGAGGCCGA CATTGAAGTA ATTACTTCAG TAATTCCGCT GGCCCGGGGG
  GCAGCGGCAG AAGCACCGAG TTAGTGCTTA GTCGACACAG GTAAAAAGGA GTCATTTTTT
  TAAAAAATGG TGAACTTGGA CAGGCTTCTG GTATTACTTT TCTCCTCTCC CCTAGAGTTC
  TTGCCCAACA GCTCCCTAGG                                            
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
ss46870456	NES10705599	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	C	T	T	T	T	T	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	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
rs29688398					SNP	T	T	T	T	T	C	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
ss46870456	NES10705599	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:108818001 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13711	CpG island 13711	63 bp proximal
Gm56806	predicted gene, 56806	797 bp upstream
Prpf38b	PRP38 pre-mRNA processing factor 38 (yeast) domain containing B	within coordinates
Rr77092	regulatory region 77092	within coordinates
Rr397945	regulatory region 397945	884 bp upstream
Tssr31269	transcription start site region 31269	1121 bp upstream
Tssr31270	transcription start site region 31270	1143 bp upstream
Tssr31271	transcription start site region 31271	1728 bp upstream
Tssr35202	transcription start site region 35202	767 bp downstream
Tssr35203	transcription start site region 35203	985 bp downstream
Tssr35204	transcription start site region 35204	1002 bp downstream