Variant report

Variant	rs609629
Chromosome Location	chr1:168708106-168708107
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:168707764..168709493-chr1:168709656..168711665,2	MCF-7	breast:
2	chr1:168701343..168703439-chr1:168705910..168708236,3	K562	blood:
3	chr1:168706095..168708640-chr1:168848539..168850688,2	MCF-7	breast:

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1018453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10489362	0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs1052591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10800378	0.80[ASN][1000 genomes]
rs12563398	0.96[ASN][1000 genomes]
rs12567476	0.92[ASN][1000 genomes]
rs12568207	0.96[ASN][1000 genomes]
rs12724380	0.95[ASN][1000 genomes]
rs12728858	0.96[ASN][1000 genomes]
rs12731369	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12735097	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12739280	0.92[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12742262	0.96[ASN][1000 genomes]
rs12748557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12755391	0.96[ASN][1000 genomes]
rs1555206	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1556790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1556791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1556792	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1556793	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17569416	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1765516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1765517	0.91[ASN][1000 genomes]
rs1989300	0.96[ASN][1000 genomes]
rs2206288	0.96[ASN][1000 genomes]
rs2206289	0.96[ASN][1000 genomes]
rs2206290	0.96[ASN][1000 genomes]
rs2223478	0.96[ASN][1000 genomes]
rs2744658	0.84[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.85[ASN][1000 genomes]
rs2744659	0.96[ASN][1000 genomes]
rs2744661	0.96[ASN][1000 genomes]
rs2744665	0.81[ASN][1000 genomes]
rs2786758	0.92[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs2786759	0.83[CHB][hapmap];0.80[ASN][1000 genomes]
rs2786760	0.94[ASN][1000 genomes]
rs2786762	0.81[ASN][1000 genomes]
rs35723976	0.92[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs472668	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs484025	0.96[ASN][1000 genomes]
rs485109	0.96[ASN][1000 genomes]
rs485855	0.96[ASN][1000 genomes]
rs489585	0.96[ASN][1000 genomes]
rs525275	0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs534139	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs538714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs542198	1.00[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];0.96[ASN][1000 genomes]
rs552859	0.91[CHB][hapmap];0.81[ASN][1000 genomes]
rs555676	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs610403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs623949	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs625712	0.96[ASN][1000 genomes]
rs627872	1.00[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];0.96[ASN][1000 genomes]
rs628718	0.83[CHB][hapmap];0.83[CHD][hapmap]
rs6427148	1.00[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];0.96[ASN][1000 genomes]
rs6427149	0.95[ASN][1000 genomes]
rs6427150	0.80[ASN][1000 genomes]
rs655128	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs656919	0.96[ASN][1000 genomes]
rs6656646	0.96[ASN][1000 genomes]
rs6666079	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6675239	0.81[ASN][1000 genomes]
rs6678818	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6690929	0.80[ASN][1000 genomes]
rs6693709	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6697889	0.96[ASN][1000 genomes]
rs6701299	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs672950	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs686610	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs731949	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.96[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs734123	0.96[ASN][1000 genomes]
rs7534485	0.96[ASN][1000 genomes]
rs760912	0.96[ASN][1000 genomes]
rs760913	0.96[ASN][1000 genomes]
rs761519	0.88[CEU][hapmap];0.91[CHB][hapmap];0.84[EUR][1000 genomes]
rs763433	0.96[ASN][1000 genomes]
rs926431	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv831836	chr1:168538779-168716956	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv831847	chr1:168669877-168850129	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168701000-168710800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:168701800-168720400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr1:168703200-168708200	Enhancers	Colon Smooth Muscle	Colon
4	chr1:168705600-168708200	Enhancers	Stomach Smooth Muscle	stomach
5	chr1:168705800-168708200	Enhancers	Fetal Heart	heart
6	chr1:168706800-168708200	Enhancers	Brain Cingulate Gyrus	brain
7	chr1:168707600-168708800	Weak transcription	HepG2	liver
8	chr1:168707600-168712400	Weak transcription	Gastric	stomach
9	chr1:168708000-168713600	Weak transcription	Right Ventricle	heart

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