rs259083530 SNP Detail

Summary

• ID
  rs259083530
• Variation Type
  SNP
• Alleles
  C/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
  Chr17:71156458 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGTTTCCATG AGTCGGGGGG
  ATTGACTTGG GGAACCCACG CTCTTTGGGC TGGGGACCTC GCATCTGGGG AAGGGGACAC
  CCAAGAGGGT GGAGCCTGAA TGGGAAGCTA GTCGTCAGCC TTCCTCCCCA CCCACGGAAA
  CCCAGTTTTG CATTCCCGCA CCCCGGAGCC ACACAAAACC AAACTACCCT CATTGAGGTG
  Y
  TATTGGAGCG GAATGCCTCC CACGGGGGTC TAGATCTGTC AGCCACGTCA AGGGGTGACA
  GAGGTCTTGA GAAGATCCCT AAGTTTTCCC CAGAGCTCAG TTAAACTGTC CCCCAACTCA
  GAGCGCCCAC ACTCTGACTG TCCCAGGGTG GAAAGGAGCA AGGAGGCCTA CTTAACCAAG
  TACCCGGGGT CTTCATGAGT                                            
  
  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	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
ss398923297	MGP_WTSI_17_71198803	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
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
rs259083530					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	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
ss398923297	MGP_WTSI_17_71198803	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:71156458 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm56904	predicted gene, 56904			1137 bp upstream
Rr405417	regulatory region 405417			1970 bp downstream
Rr530334	regulatory region 530334			654 bp distal
Rr530335	regulatory region 530335			317 bp proximal
Rr530336	regulatory region 530336			1215 bp proximal
Rr530337	regulatory region 530337			1596 bp proximal
Rr530338	regulatory region 530338			1734 bp proximal
Tgif1	TGFB-induced factor homeobox 1			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
				Noncoding-Transcript-Variant
Tssr145684	transcription start site region 145684			within coordinates
Tssr145685	transcription start site region 145685			694 bp upstream
Tssr145686	transcription start site region 145686			1232 bp upstream
Tssr145687	transcription start site region 145687			1873 bp upstream
Tssr149219	transcription start site region 149219			171 bp upstream
Tssr149220	transcription start site region 149220			318 bp downstream
Tssr149221	transcription start site region 149221			890 bp downstream
Tssr149222	transcription start site region 149222			1594 bp downstream
Tssr149223	transcription start site region 149223			1612 bp downstream
Tssr149224	transcription start site region 149224			1646 bp downstream
Tssr149225	transcription start site region 149225			1726 bp downstream
Tssr149226	transcription start site region 149226			1755 bp downstream