Variant report

Variant	rs7860019
Chromosome Location	chr9:98585873-98585874
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr9:98584403..98586297-chr9:98637755..98640000,3	MCF-7	breast:
2	chr9:98583596..98587083-chr9:98587311..98591492,4	MCF-7	breast:
3	chr9:98585623..98589276-chr9:98636803..98639212,4	MCF-7	breast:
4	chr9:98569719..98571881-chr9:98585000..98587559,2	MCF-7	breast:
5	chr9:98571797..98574683-chr9:98583300..98586661,3	MCF-7	breast:
6	chr9:98584113..98586604-chr9:98610986..98613982,2	MCF-7	breast:
7	chr9:98578285..98580022-chr9:98583507..98586457,2	MCF-7	breast:
8	chr9:98585752..98588064-chr9:98594275..98596472,2	MCF-7	breast:
9	chr9:98583856..98586047-chr9:98617880..98619976,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000175611	Chromatin interaction
ENSG00000182150	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10760261	0.86[YRI][hapmap]
rs10760269	0.86[YRI][hapmap]
rs10985499	0.86[YRI][hapmap]
rs11998816	1.00[EUR][1000 genomes]
rs12000947	1.00[EUR][1000 genomes]
rs12001253	1.00[EUR][1000 genomes]
rs12004258	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12004510	1.00[EUR][1000 genomes]
rs12004765	1.00[EUR][1000 genomes]
rs3991704	0.90[AFR][1000 genomes]
rs45604033	1.00[EUR][1000 genomes]
rs4742769	0.89[YRI][hapmap];0.92[AFR][1000 genomes]
rs55870020	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56275194	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56938111	1.00[EUR][1000 genomes]
rs58715455	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59046245	0.91[AFR][1000 genomes]
rs59510923	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60301271	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6478983	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479043	1.00[EUR][1000 genomes]
rs7021641	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7028929	1.00[TSI][hapmap]
rs7030427	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7031397	0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7039115	1.00[EUR][1000 genomes]
rs7041571	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7043426	1.00[EUR][1000 genomes]
rs7043732	1.00[EUR][1000 genomes]
rs7046189	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7047126	1.00[ASW][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73528896	1.00[EUR][1000 genomes]
rs73528901	1.00[EUR][1000 genomes]
rs73530711	1.00[EUR][1000 genomes]
rs73534614	1.00[EUR][1000 genomes]
rs73656542	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73656543	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73656554	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73656561	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73656564	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7847478	1.00[EUR][1000 genomes]
rs7850319	1.00[EUR][1000 genomes]
rs7854738	1.00[EUR][1000 genomes]
rs7875882	1.00[EUR][1000 genomes]
rs892647	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98570400-98589200	Weak transcription	Left Ventricle	heart
2	chr9:98570400-98589200	Weak transcription	Right Ventricle	heart
3	chr9:98570400-98593200	Weak transcription	Gastric	stomach
4	chr9:98570400-98593800	Weak transcription	Right Atrium	heart
5	chr9:98570800-98601400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:98576000-98596000	Weak transcription	Aorta	Aorta
7	chr9:98581800-98593800	Weak transcription	Fetal Intestine Small	intestine
8	chr9:98582600-98586000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr9:98583800-98586600	Enhancers	Placenta Amnion	Placenta Amnion
10	chr9:98584400-98586000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr9:98584400-98586000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr9:98584400-98586200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr9:98584400-98586200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:98584600-98586000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr9:98584600-98586000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr9:98584600-98586000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:98584600-98586000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr9:98584600-98586000	Flanking Active TSS	GM12878-XiMat	blood
19	chr9:98584600-98586000	Enhancers	NH-A	brain
20	chr9:98584800-98586000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:98584800-98586000	Flanking Active TSS	Hela-S3	cervix
22	chr9:98584800-98586200	Enhancers	HUVEC	blood vessel
23	chr9:98585000-98586000	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr9:98585200-98586200	Enhancers	Muscle Satellite Cultured Cells	--
25	chr9:98585200-98593600	Weak transcription	Spleen	Spleen
26	chr9:98585800-98586000	Enhancers	Sigmoid Colon	Sigmoid Colon
27	chr9:98585800-98586200	Enhancers	NHLF	lung
28	chr9:98585800-98588200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr9:98585800-98588800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr9:98585800-98589200	Weak transcription	Lung	lung
31	chr9:98585800-98592200	Weak transcription	Ovary	ovary
32	chr9:98585800-98593200	Weak transcription	Fetal Stomach	stomach
33	chr9:98585800-98593200	Weak transcription	Stomach Smooth Muscle	stomach

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