rs6204029 SNP Detail

Summary

• ID
  rs6204029
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:146190474 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AACTCAGGAC CTCTGGAAGA
  GCAGTCAGTG CTCTTAGCTG CTGAGCCATA TCACTAGCTC CTTAACACCT CATTTGAATT
  ACAGGAATTT TTTATTTGTT TTTAGAAAAG CACCAAAAAT TAACCTGAAG AGCTCAGAGT
  ACTTCTAGGC ATTGGTCTGC TGTCCATCTT ACTGCATGCC CTCAAGCCCT ACATTCTTTT
  Y
  AGTGGCCTGT GTGAGCCCCA TAAATAAAGG CTGAGATAAG ACCCCTACCT TTAGAATAGC
  CTTGAGCCTA TAGCAACATC CTGCTATTTG CCACATCCTG GGCTCAAGAA CTAACTCTTA
  GTTTTTCAAT TCCTTCTTTA CTGTGCCCTG AACATCTGCT TGTGGGCTTC TGCTTCAGGA
  GACTGCTCCT GCCCTCTCAA                                            
  
  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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
ss8609673	WI_WGS_3_147020291	WI	MOUSE	f	SNP							C		T
ss47027688	NES10839020	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	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	PWD/PhJ	WSB/EiJ
rs6204029					SNP	C	C	C	C	C	C	C	C	T	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
ss47027688	NES10839020	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:146190474 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Rr587033	regulatory region 587033			1860 bp proximal
Rr587034	regulatory region 587034			1869 bp proximal
Rr587035	regulatory region 587035			1930 bp proximal
Spata1	spermatogenesis associated 1			Intron
				Noncoding-Transcript-Variant