rs27542939 SNP Detail

Summary

• ID
  rs27542939
• Variation Type
  SNP
• Alleles
  A/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
  Chr4:132648392 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAGCAAGAGG CCTGGGTGAG
  TCATGTAACT CTCTGGACCT TCTCCTCTAT ATGCATATCA CTTCCCTGCT GTTGATGTGG
  GAGTAGGAAT CTGTATGAAC TACTCATAGA TTTTAAAACA AATATATCAT GAATAAGCTC
  TAGATTGGTC GTTAGCTCTC TAGGTAAGAG TCCAGCTGGT CCGTCTGCTG TTGTGGGATA
  R
  TGAGAAGGAT CACTTGTGAT ACGAAGGCAA AAGATTAAAG CTGTCTTGTT TATTGAACTT
  CCTTTAAAAA AAAAAAAAAA AAAAAAAAAG AGCCGGGAGG TGGTGGCACA TGCCTTTAAT
  CCCAGCACTC AGGAGGCCGA GTTCAGGATT TTCTGAGTTC GAGGCCTGCC TGGTCTACAA
  AGTGAGTTTC AGGACAGCCA                                            
  
  R = A/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	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37757460	NES09163970	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	A	A	A	A	G		G	A	A	A		A
ss321337425	CHEV_4_132476996	CHEVERUD	SCREENING_POP	f	SNP										A					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27542939					SNP	A	A	A	A	A	A	A	A	G	A	G	A	A	A	G	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
ss37757460	NES09163970	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:132648392 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14977	CpG island 14977	901 bp proximal
Fam76a	family with sequence similarity 76, member A	Intron
Gm69717	predicted gene, 69717	within coordinates
Rr398546	regulatory region 398546	1598 bp upstream
Rr601111	regulatory region 601111	544 bp proximal
Rr601112	regulatory region 601112	1402 bp proximal
Rr601113	regulatory region 601113	1421 bp proximal
Rr601114	regulatory region 601114	1647 bp proximal
Tssr43726	transcription start site region 43726	62 bp downstream
Tssr43727	transcription start site region 43727	1406 bp downstream
Tssr43728	transcription start site region 43728	1466 bp downstream
Tssr43729	transcription start site region 43729	1509 bp downstream
Tssr43730	transcription start site region 43730	1524 bp downstream
Tssr43731	transcription start site region 43731	1539 bp downstream
Tssr43732	transcription start site region 43732	1546 bp downstream