Variant report

Variant	rs6800142
Chromosome Location	chr3:135698939-135698940
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135684450..135686631-chr3:135698740..135700367,2	MCF-7	breast:
2	chr3:135697805..135699794-chr3:135735661..135738510,2	MCF-7	breast:
3	chr3:135693339..135695483-chr3:135697510..135700287,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000073711	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs6439606	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6779901	1.00[AMR][1000 genomes]
rs6784017	1.00[AMR][1000 genomes]
rs6802901	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72977702	1.00[AMR][1000 genomes]
rs7613398	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	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv829732	chr3:135561706-135756840	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	esv3463539	chr3:135696927-135701248	Weak transcription Flanking Active TSS Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3463540	chr3:135696927-135701248	Weak transcription Enhancers Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv2421767	chr3:135697373-135699877	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135687600-135700400	Weak transcription	Fetal Intestine Small	intestine
2	chr3:135690200-135701200	Weak transcription	NHEK	skin
3	chr3:135690200-135701400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:135690400-135700800	Weak transcription	HSMM	muscle
5	chr3:135691000-135699600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:135691200-135699600	Weak transcription	Ovary	ovary
7	chr3:135693000-135700600	Weak transcription	Pancreas	Pancrea
8	chr3:135693000-135701400	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:135693400-135699800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:135693400-135699800	Weak transcription	NHLF	lung
11	chr3:135693400-135700600	Weak transcription	NH-A	brain
12	chr3:135693400-135701400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:135693600-135701200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:135693600-135704000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:135694000-135699600	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr3:135694000-135700800	Weak transcription	Aorta	Aorta
17	chr3:135694000-135713600	Weak transcription	Fetal Lung	lung
18	chr3:135694000-135726600	Weak transcription	Esophagus	oesophagus
19	chr3:135694200-135699000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr3:135694200-135699600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:135694200-135699600	Weak transcription	Brain Substantia Nigra	brain
22	chr3:135694200-135699600	Weak transcription	Psoas Muscle	Psoas
23	chr3:135694200-135699600	Weak transcription	NHDF-Ad	bronchial
24	chr3:135694200-135701200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:135694200-135702000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr3:135694200-135707400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr3:135694200-135707400	Weak transcription	Gastric	stomach
28	chr3:135694200-135708800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:135694200-135709600	Weak transcription	Right Atrium	heart
30	chr3:135694200-135713400	Weak transcription	Brain Hippocampus Middle	brain
31	chr3:135698400-135699800	Enhancers	Right Ventricle	heart
32	chr3:135698400-135702600	Enhancers	Rectal Mucosa Donor 31	rectum
33	chr3:135698600-135699000	Weak transcription	Colon Smooth Muscle	Colon
34	chr3:135698800-135700600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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