rs30600627 SNP Detail

Summary

• ID
  rs30600627
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr1:171677679 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAGTAGAATG ACCATTAATC
  CATAGGACCT GAATTCAAAA AAGCCTTAAG ACATGGAGAA GATCTGATGT AGGGGTTAGC
  TATGAAACTT GAAGGATCCA GTGCAAAACA GAAGTTTGGG GTCTGCTGTT CAAAATTCTT
  TAAGTATTTG GAAAGCACAC AGCCCCAGAA AACCAAGTTC AGCATCCTTT GAGCTTAGCC
  S
  ATGCACATGC TAGCCCTGAG ATGCAAGCTA AGATACTTCA AGTTCCCTTT GTGAACTCTA
  TCAACCCAGC AGGATAATTT ATAGGGTGAC AGTTGGTGCT GGAGATGTTT GCAAAGTGTG
  GCTGCAGTGG CAACATTAGC AAAGCTTTAT GTTCTCTGTG TTTTCTTCTT GTTGCCCTTC
  CACTTGCCAC TCATTATGCC                                            
  
  S = C/G
  

  
  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	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	PWD/PhJ	SM/J
ss44943874	mCV24401844	ABI	CRAMUS_MOUSE	f	SNP	C	G					C		C
ss49748421	NES13030752	PERLEGEN	MM_PANEL2	f	SNP	C	G	C	C	C	C		C	C	C	C		C	G
ss146176056	ENSMUSSNP4078057	ENSEMBL	ENSEMBL_Sanger	f	SNP		G							C
ss320121287	CHEV_1_173780243	CHEVERUD	SCREENING_POP	f	SNP												C			G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	PWD/PhJ	SM/J
rs30600627					SNP	C	G	C	C	C	C	C	C	C	C	C	C	C	G	G

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
ss49748421	NES13030752	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:171677679 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cd84	CD84 antigen			Intron
				Noncoding-Transcript-Variant
Rr423404	regulatory region 423404			1062 bp distal
Rr423405	regulatory region 423405			248 bp distal
Tssr292	transcription start site region 292			456 bp downstream
Tssr10111	transcription start site region 10111			1706 bp downstream
Tssr10112	transcription start site region 10112			267 bp downstream
Tssr10113	transcription start site region 10113			1740 bp upstream
Tssr10114	transcription start site region 10114			1789 bp upstream
Tssr10115	transcription start site region 10115			1848 bp upstream
Tssr10116	transcription start site region 10116			1870 bp upstream
Tssr10117	transcription start site region 10117			1883 bp upstream
Tssr10118	transcription start site region 10118			1902 bp upstream
Tssr10119	transcription start site region 10119			1918 bp upstream
Tssr10120	transcription start site region 10120			1939 bp upstream
Tssr10121	transcription start site region 10121			1980 bp upstream
Tssr15122	transcription start site region 15122			590 bp upstream
Tssr15123	transcription start site region 15123			575 bp upstream
Tssr15124	transcription start site region 15124			564 bp upstream