rs27542938 SNP Detail

Summary

• ID
  rs27542938
• 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
  Chr4:132648403 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTGGGTGAGT CATGTAACTC
  TCTGGACCTT CTCCTCTATA TGCATATCAC TTCCCTGCTG TTGATGTGGG AGTAGGAATC
  TGTATGAACT ACTCATAGAT TTTAAAACAA ATATATCATG AATAAGCTCT AGATTGGTCG
  TTAGCTCTCT AGGTAAGAGT CCAGCTGGTC CGTCTGCTGT TGTGGGATAA TGAGAAGGAT
  Y
  ACTTGTGATA CGAAGGCAAA AGATTAAAGC TGTCTTGTTT ATTGAACTTC CTTTAAAAAA
  AAAAAAAAAA AAAAAAAAGA GCCGGGAGGT GGTGGCACAT GCCTTTAATC CCAGCACTCA
  GGAGGCCGAG TTCAGGATTT TCTGAGTTCG AGGCCTGCCT GGTCTACAAA GTGAGTTTCA
  GGACAGCCAG GGCTATACAG                                            
  
  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	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37757459	NES09163971	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	T		T	C	C	C		C
ss321337426	CHEV_4_132477007	CHEVERUD	SCREENING_POP	f	SNP										C					T
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
rs27542938					SNP	C	C	C	C	C	C	C	C	T	C	T	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
ss37757459	NES09163971	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:132648403 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14977	CpG island 14977	890 bp proximal
Fam76a	family with sequence similarity 76, member A	Intron
Gm69717	predicted gene, 69717	within coordinates
Rr398546	regulatory region 398546	1587 bp upstream
Rr601111	regulatory region 601111	533 bp proximal
Rr601112	regulatory region 601112	1391 bp proximal
Rr601113	regulatory region 601113	1410 bp proximal
Rr601114	regulatory region 601114	1636 bp proximal
Tssr43726	transcription start site region 43726	51 bp downstream
Tssr43727	transcription start site region 43727	1395 bp downstream
Tssr43728	transcription start site region 43728	1455 bp downstream
Tssr43729	transcription start site region 43729	1498 bp downstream
Tssr43730	transcription start site region 43730	1513 bp downstream
Tssr43731	transcription start site region 43731	1528 bp downstream
Tssr43732	transcription start site region 43732	1535 bp downstream