Variant report

Variant	rs6662081
Chromosome Location	chr1:98467773-98467774
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:98467068..98468153-chr1:98516629..98517318,4	MCF-7	breast:
2	chr1:98467524..98468032-chr1:98513537..98514095,2	MCF-7	breast:
3	chr1:98467177..98468159-chr1:98516336..98516861,2	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs17117964	1.00[AMR][1000 genomes]
rs57653088	1.00[AMR][1000 genomes]
rs58243347	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58638365	1.00[AMR][1000 genomes]
rs58639633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58893462	1.00[AMR][1000 genomes]
rs59037638	1.00[AMR][1000 genomes]
rs59356371	1.00[AMR][1000 genomes]
rs59538909	1.00[AMR][1000 genomes]
rs59954273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60078043	1.00[AMR][1000 genomes]
rs60887083	1.00[AMR][1000 genomes]
rs60911244	1.00[AMR][1000 genomes]
rs61174144	1.00[AMR][1000 genomes]
rs61211497	1.00[AMR][1000 genomes]
rs61492808	1.00[AMR][1000 genomes]
rs72963706	1.00[AMR][1000 genomes]
rs72963734	1.00[AMR][1000 genomes]
rs72963743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72963747	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72963772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72967637	1.00[AMR][1000 genomes]
rs72967645	1.00[AMR][1000 genomes]
rs72967661	1.00[AMR][1000 genomes]
rs72969626	1.00[AMR][1000 genomes]
rs72969641	1.00[AMR][1000 genomes]
rs72969655	1.00[AMR][1000 genomes]
rs72969666	1.00[AMR][1000 genomes]
rs72969667	1.00[AMR][1000 genomes]
rs72969669	1.00[AMR][1000 genomes]
rs72969673	1.00[AMR][1000 genomes]
rs72969678	1.00[AMR][1000 genomes]
rs72969696	1.00[AMR][1000 genomes]
rs72969699	1.00[AMR][1000 genomes]
rs72979743	1.00[AMR][1000 genomes]
rs72979754	1.00[AMR][1000 genomes]
rs72979756	1.00[AMR][1000 genomes]
rs72979762	1.00[AMR][1000 genomes]
rs72979773	1.00[AMR][1000 genomes]
rs72979780	1.00[AMR][1000 genomes]
rs72979786	1.00[AMR][1000 genomes]
rs72979788	1.00[AMR][1000 genomes]
rs72981731	1.00[AMR][1000 genomes]
rs72981733	1.00[AMR][1000 genomes]
rs72981734	1.00[AMR][1000 genomes]
rs72981735	1.00[AMR][1000 genomes]
rs72981737	1.00[AMR][1000 genomes]
rs72981745	1.00[AMR][1000 genomes]
rs72981751	1.00[AMR][1000 genomes]
rs72981754	1.00[AMR][1000 genomes]
rs72981756	1.00[AMR][1000 genomes]
rs72981760	1.00[AMR][1000 genomes]
rs72981761	1.00[AMR][1000 genomes]
rs72981763	1.00[AMR][1000 genomes]
rs72981765	1.00[AMR][1000 genomes]
rs72981766	1.00[AMR][1000 genomes]
rs72981768	1.00[AMR][1000 genomes]
rs72981774	1.00[AMR][1000 genomes]
rs74106051	1.00[AMR][1000 genomes]
rs74106378	1.00[AMR][1000 genomes]
rs7517110	1.00[AMR][1000 genomes]
rs7553077	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012958	chr1:98081528-98864746	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv871625	chr1:98165091-98564736	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv871077	chr1:98274132-98541677	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
4	nsv1009621	chr1:98435638-98599284	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
5	nsv871230	chr1:98436232-98564736	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
6	nsv470729	chr1:98461443-98564736	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
7	nsv546874	chr1:98461443-98564736	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98455200-98470600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr1:98462800-98467800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:98463800-98470600	Weak transcription	Hela-S3	cervix
4	chr1:98463800-98499800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:98465200-98474000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:98465400-98470800	Weak transcription	NHLF	lung
7	chr1:98466000-98470600	Weak transcription	NH-A	brain
8	chr1:98466200-98471200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr1:98466400-98470800	Weak transcription	HSMM	muscle
10	chr1:98466400-98475600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr1:98466800-98468200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr1:98467000-98468000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:98467200-98468000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr1:98467200-98468400	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr1:98467400-98468000	Enhancers	Muscle Satellite Cultured Cells	--
16	chr1:98467400-98468200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr1:98467400-98468200	Enhancers	Osteobl	bone
18	chr1:98467400-98468600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:98467400-98469200	Enhancers	A549	lung
20	chr1:98467600-98468400	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr1:98467600-98468400	Enhancers	NHDF-Ad	bronchial
22	chr1:98467600-98473000	Weak transcription	Fetal Brain Male	brain

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