rs254778720 SNP Detail

Summary

• ID
  rs254778720
• Variation Type
  SNP
• Alleles
  G/T

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

Genome Location and Flanking Sequence

• Location
  Chr1:13443707 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCGCGGCCC GAGCGCTACC
  GCCCCGAAGC CACCCAAGCC CGAGGCCCCC CAGACGCCCG AGCCCCCGCC GCCGCCCCTG
  CCGGCCGCGT CACCTTCACA CACCCCCGGC ACTTCCCAGG TCCTGCCTCC CCTCGGCCGG
  CTCCCACCCG TGCAGCAGTG GCCGCACGCC TCCCGGGAAG AAAGCACCGG CCGCGACTGC
  K
  CCCGCCGGCC CGGGCTTCCC CCGCCTGCCC GGGCTGCGCC GCGCAGCCTC GAGGGGGCCG
  GAGCAGGGGC CCGCGGCACA ACCGCCGCTT CCCAGCCTGG TGCTCACCTC TCGGCCGGCG
  CCGCGGGCTG CAGCCTCCAC CCGCCTCGCG CTCCAGGGCT CGTCTCCCGA GCTCTCTCGC
  CCGGCGCCCG AGCGCCTCCT                                            
  
  K = G/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	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss348676308	MGP_WTSI_1_13363564	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs254778720					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G

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
ss348676308	MGP_WTSI_1_13363564	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:13443707 () rs orientation: forward

Symbol	Name	Function Class
Gm29570	predicted gene 29570	within coordinates
Gm70663	predicted gene, 70663	745 bp downstream
Ncoa2	nuclear receptor coactivator 2	Intron
Rr395968	regulatory region 395968	775 bp downstream
Rr407893	regulatory region 407893	1055 bp distal
Rr407894	regulatory region 407894	974 bp distal
Rr407895	regulatory region 407895	within coordinates
Rr407896	regulatory region 407896	189 bp proximal
Rr407897	regulatory region 407897	590 bp proximal
Rr407898	regulatory region 407898	776 bp proximal
Rr407899	regulatory region 407899	1224 bp proximal
Tssr5965	transcription start site region 5965	565 bp downstream
Tssr10989	transcription start site region 10989	1026 bp upstream
Tssr10990	transcription start site region 10990	159 bp downstream
Tssr10991	transcription start site region 10991	396 bp downstream
Tssr10992	transcription start site region 10992	544 bp downstream
Tssr10993	transcription start site region 10993	589 bp downstream
Tssr10994	transcription start site region 10994	638 bp downstream
Tssr10995	transcription start site region 10995	737 bp downstream
Tssr10996	transcription start site region 10996	913 bp downstream
Tssr10997	transcription start site region 10997	949 bp downstream