rs52539250 SNP Detail

Summary

• ID
  rs52539250
• Variation Type
  SNP
• Alleles
  A/T

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

Genome Location and Flanking Sequence

• Location
  Chr5:138553648 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GACTGATGTG TGGGGATTGC
  AGCTGACTTA ATGAGGGACT GTCCTAAACA GGGGACTCTG TGCTCCTTCT TGGACCCTCC
  AACTGCCCTG TGGGGAACAG TAAAGGGACA ACTTGTCAAG ATGCCCTGTC CTTTTCTTTT
  TTTTTTTAAT TAAATATATA TTTTATTAAA TATTTTTTTT ATTTCTTTTT TCCCATTTTT
  W
  TTAGGTATTT AGCTCATTTA CATTTCCAAT GCTATACCAA AAGTCCCCCA TATCCACCCA
  CCCCCACTCC CCTGCCCACC CACTCCCCCT TTTTGGCCCT GGTGTTCCCC TGTACTGAGG
  CATATAAAGT TTGCAAGTCC AATGGGCCTC TCTTTCCAGT GATGGCCGAC TAGGCCATCT
  TTTGATATAT ATGCAGCTAG                                            
  
  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	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CZECHII/EiJ	I/LnJ	JF1/MsJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SJL/J	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss366898837	MGP_WTSI_5_138996614	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	T	T	A	A	A	A	A	A	A	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CZECHII/EiJ	I/LnJ	JF1/MsJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SJL/J	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs52539250					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	T	T	A	A	A	A	A	A	A	A	A	A	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
ss366898837	MGP_WTSI_5_138996614	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:138553648 () rs orientation: forward

Symbol	Name	Function Class
D5Dcr15	DNA Segment, Chr 5, Derry C. Roopenian 15	1696 bp proximal
D5Mit31	DNA segment, Chr 5, Massachusetts Institute of Technology 31	1588 bp proximal