rs49457401 SNP Detail

Summary

• ID
  rs49457401
• 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
  Chr9:78522784 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTTCATACA TATACAGAAA
  CTACCAATAT ATACCTACCG ATGTGTGAAT GTGCATGTGT GTGTGTGTGT GTGTGTGTGT
  GTGTAGGCAC GCGAACGCTT GCCATTTTCC TAAACTTCTG ACTCATCGTC TGGAGGACAA
  TGATTGACTT TTCCTCAGTT CACATAGCTG CCCTGGATGC CGCTCACAAG GATGGGCCTG
  Y
  TTATTCACTC CGGGCATCCC TGGTAGAGCG CTAGAGTAAA CAAACCCCAG GTTCCCGGTG
  GCGGGGGAAA TGGGCTCCCT ATGTTCTCCC TGGGGAGCAG GAAAGTTGGG GCCAGGTTGT
  GGCCACCGCG TGCAGAGACC GCTTTTCTCA GCAACGGGAC AGCGCGACGT TAGCCTGGGA
  GAAGCCAGAA GCGCCATTGT                                            
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	NOD/ShiLtJ	WSB/EiJ
ss61426859	NES16809510	PERLEGEN	MM_PANEL2	f	SNP		C	C	C	T	C	T		C	C	C
ss136669095	ENSMUSSNP2255713	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	C						C
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	NOD/ShiLtJ	WSB/EiJ
rs49457401					SNP	T	C	C	C	T	C	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
ss61426859	NES16809510	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:78522784 () rs orientation: forward

Symbol	Name	Function Class
Cd109	CD109 antigen	44 bp upstream
Cpgi22073	CpG island 22073	within coordinates
Gm69315	predicted gene, 69315	within coordinates
Rr683597	regulatory region 683597	906 bp distal
Rr683598	regulatory region 683598	within coordinates
Rr683599	regulatory region 683599	142 bp proximal
Tssr86295	transcription start site region 86295	28 bp downstream
Tssr86296	transcription start site region 86296	9 bp downstream
Tssr86297	transcription start site region 86297	within coordinates
Tssr86298	transcription start site region 86298	236 bp upstream
Tssr86299	transcription start site region 86299	255 bp upstream
Tssr86300	transcription start site region 86300	302 bp upstream
Tssr86301	transcription start site region 86301	319 bp upstream
Tssr86302	transcription start site region 86302	335 bp upstream
Tssr90659	transcription start site region 90659	143 bp downstream