rs27604789 SNP Detail

Summary

• ID
  rs27604789
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:135245402 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGCTGATCTC TCTTTTGGAC
  GCCATGGCTG ATCTTGGTCA CCAGATGGAG GCAAGACTGC CTGGCTGAAC GAACATGTCG
  GTCCCACACC ACTTTACTAG CAGAGTTGAA TTTCTTGGTA AAGGATTGGC CAAAAACCAA
  AGGCTGCTGC AGGTTTAGTC TTTGCTGCTG AGAACACTGG GGAGCGCCGC AACCAGAGCT
  Y
  GGGTTTGAAC CCGGGTTAGA ATCAGACTAG CACAGCCTGG CTTCTGCCGA AACTCCTACC
  CTCATACCAC CGTGGAGAGC CACCCCCACG AGCCCTCTCC CCTGTGTGTA TGTGGCTATT
  AACCTCCACG GAATGGAGAA TCCCCACGGC AGTGTTCCCG AGCCTTTCAC TGTAAAGCCA
  TGGGAACGCT CTTGTTTTAT                                            
  
  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
ss37779816	NES09143284	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	C	T	T	C	T	T	C	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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27604789					SNP	T	T	T	T	T	T	C	T	T	C	T	T	C	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
ss37779816	NES09143284	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:135245402 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr602053	regulatory region 602053			694 bp distal
Rr602054	regulatory region 602054			963 bp distal
Rr602055	regulatory region 602055			146 bp distal
Rr602056	regulatory region 602056			1482 bp proximal
Stpg1	sperm tail PG rich repeat containing 1			Intron
				Noncoding-Transcript-Variant