rs27425779 SNP Detail

Summary

• ID
  rs27425779
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr2:121949053 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CTCAA TTCAATAATA CGCCAGGGCC
  W
  TTCAGCTGCT TGTGCTGTCC TTGCT                                      
  
  W = A/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	A/J	BTBR T<+> Itpr3/J	DBA/2J	KK/HlJ	LG/J	MOLF/EiJ	SM/J
ss37644599	NES09021133	PERLEGEN	MM_PANEL2	f	SNP		A	A	T		T
ss147409350	ENSMUSSNP3648612	ENSEMBL	ENSEMBL_Sanger	f	SNP	A		A
ss320487092	CHEV_2_121944308	CHEVERUD	SCREENING_POP	f	SNP					T		A
SNP Consensus Information
SNP					Consensus Type	A/J	BTBR T<+> Itpr3/J	DBA/2J	KK/HlJ	LG/J	MOLF/EiJ	SM/J
rs27425779					SNP	A	A	A	T	T	T	A

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
ss37644599	NES09021133	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:121949053 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12168	CpG island 12168	within coordinates
Gm75635	predicted gene, 75635	within coordinates
Patl2	protein associated with topoisomerase II homolog 2 (yeast)	1536 bp downstream
Rr55508	regulatory region 55508	within coordinates
Rr58060	regulatory region 58060	1853 bp distal
Rr373779	regulatory region 373779	within coordinates
Spg11	SPG11, spatacsin vesicle trafficking associated	186 bp upstream
Tssr19802	transcription start site region 19802	1637 bp downstream
Tssr19803	transcription start site region 19803	18 bp downstream
Tssr25950	transcription start site region 25950	223 bp upstream
Tssr25951	transcription start site region 25951	175 bp upstream