rs52180677 SNP Detail

Summary

• ID
  rs52180677
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:116698101 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACACTAACA TGGATGGGTT
  CCTTTGGAAG ACATCCCTGG TGCTCTAGTG ACAGCACAGG CCGTGTGTTT CCTCCTACTC
  CGTATTTTCT ATCTCTGCTG TGAGGACTTA CAGCCAGTGG GTGGCGCTGT AATACCGGAG
  GACTCATTTG TTCTGTTGCC ACTAAGTGTT TTTATTATGG GACTATTTCC TTACATCATA
  Y
  GCTCTGAATT CTCTCTCTCT CTCTCTCTCT CTCTCTCTCT CTCTCTCTCC CTCCCTCCCT
  CCCTCCCTCT CCCTCTCCCT CTCCCTCTCC CTCTCCCTCT CCCTCTCTCT CTCTCTCTCT
  CTCTCTCTCT CTCTCTCTCT GTAATAGGTG CTAGAAACTT AATGACTGGT GTTAATACTT
  TCTGACTTAA CTTTTATTTG                                            
  
  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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60435749	NES15935109	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs52180677					SNP	T	T	T	T	T	T	T	T	T	T	C	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
ss60435749	NES15935109	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:116698101 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13742	CpG island 13742			1671 bp proximal
Frrs1	ferric-chelate reductase 1			mRNA-UTR
				Noncoding-Transcript-Variant
Rr583800	regulatory region 583800			within coordinates
Rr583801	regulatory region 583801			311 bp distal
Rr583802	regulatory region 583802			70 bp distal
Rr583803	regulatory region 583803			1516 bp proximal
Tssr31391	transcription start site region 31391			846 bp downstream
Tssr31392	transcription start site region 31392			764 bp downstream
Tssr31393	transcription start site region 31393			737 bp downstream
Tssr31394	transcription start site region 31394			700 bp downstream
Tssr31395	transcription start site region 31395			54 bp downstream
Tssr31396	transcription start site region 31396			1921 bp upstream