rs47399408 SNP Detail

Summary

• ID
  rs47399408
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr5:138116498 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTATAAACTG TAGAATTCGC
  ATAAAGGAGG GAAAAATTGG GAAGTGACCA AAAGCCTGCT GCTAGACTTC GAGAGTTAGG
  TTTTTATTTT TTTACTCTGT GTGTGTGTGT GTGTGTGTGA GTCAAAGGAT AGTTGGCATA
  GTTGACTGCT TCCCTTCCAT TACATGGACA CCAGTCTCAA AACAGGCAGC AGGTCGGTTG
  Y
  ATTTGTTACC CACTGAGCCA TCTTGTCAGT TGAGTTAAAC CTTTAGATAG GGGCTGGAGA
  GATGGCTCAG TGGTTAAGAG CACTACTGGC TGCTCTTCCA GAGGTCCTGA GTTCAAATCC
  CAGCAACCAC TTGGTGGCTC ATGGCCATTT GTAATGTGAT CTTATGCCCT CTTCTGGTGT
  GTCTGAAAAC AGCAACAGTG                                            
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60847502	NES16003335	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs47399408					SNP	C	C	C	C	C	C	C	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
ss60847502	NES16003335	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:138116498 () rs orientation: forward

Symbol	Name	Function Class
Cpgi16853	CpG island 16853	955 bp distal
Gm71396	predicted gene, 71396	1018 bp downstream
Rr399441	regulatory region 399441	1111 bp downstream
Rr623030	regulatory region 623030	1185 bp distal
Rr623031	regulatory region 623031	288 bp distal
Rr623032	regulatory region 623032	161 bp proximal
Tssr49413	transcription start site region 49413	1250 bp downstream
Tssr54072	transcription start site region 54072	1368 bp upstream
Zscan21	zinc finger and SCAN domain containing 21	within coordinates