rs254011459 SNP Detail

Summary

• ID
  rs254011459
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr2:9883987 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCTGCCCCA TTCATAAAGC
  TAATTTCCAT AAGCAGACTT TTCGATACTT TTTTAAAAAT GAGCAAACTT TTAAATTAGG
  ATTCAAGCCA GAACGTTTTT CAGTTTATAT CAGCTTAGGG GCTATGTGCA TGTAAAACAG
  ATTAGAAAAG TTTCATGGCG AAGTAACTGA AGATTTGCCT CCGAACCAGC TTTCCGGGAG
  R
  CTGCTGAATC GCGCGGAGGA CCTGGGCTTT GATTCGGACG CCCGCGTTAT TGTTATGGTC
  TCTGCTTGCT TTCCCAAACC TCTCCAGAAC GAACAGCGTC AGCTGTTGCA GCTGTCTTTT
  TCGGATCTAA TGATATCATC AATGTGTGCT TTTGACCTTA GTGACAACGC GATGCATAAA
  AAGCTGGCTT AGCGAGACCT                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	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
ss353056034	MGP_WTSI_2_9800803	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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	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
rs254011459					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	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	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
ss353056034	MGP_WTSI_2_9800803	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:9883987 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11183	CpG island 11183			1458 bp distal
Cpgi11184	CpG island 11184			within coordinates
Cpgi11185	CpG island 11185			1895 bp proximal
Gata3	GATA binding protein 3			Intron
				Noncoding-Transcript-Variant
Gm13256	predicted gene 13256			307 bp downstream
Gm75628	predicted gene, 75628			1596 bp downstream
Rr339	regulatory region 339			1881 bp proximal
Rr551592	regulatory region 551592			1910 bp distal
Rr551593	regulatory region 551593			86 bp distal
Rr551594	regulatory region 551594			583 bp proximal
Rr551595	regulatory region 551595			915 bp proximal
Rr551596	regulatory region 551596			1952 bp proximal
Tssr16062	transcription start site region 16062			571 bp upstream
Tssr16063	transcription start site region 16063			1277 bp upstream
Tssr22554	transcription start site region 22554			1717 bp upstream
Tssr22555	transcription start site region 22555			1326 bp upstream
Tssr22556	transcription start site region 22556			1289 bp upstream
Tssr22557	transcription start site region 22557			1160 bp upstream
Tssr22558	transcription start site region 22558			982 bp upstream
Tssr22559	transcription start site region 22559			807 bp upstream
Tssr22560	transcription start site region 22560			727 bp upstream
Tssr22561	transcription start site region 22561			695 bp upstream
Tssr22562	transcription start site region 22562			569 bp upstream
Tssr22563	transcription start site region 22563			361 bp downstream
Tssr22564	transcription start site region 22564			387 bp downstream
Tssr22565	transcription start site region 22565			413 bp downstream
Tssr22566	transcription start site region 22566			1867 bp downstream
Tssr22567	transcription start site region 22567			1944 bp downstream