Variant report

Variant	rs198682
Chromosome Location	chr6:143198069-143198070
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:143192752..143194574-chr6:143196705..143198471,2	MCF-7	breast:
2	chr6:143196732..143198934-chr6:143203908..143205844,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs109301	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11155266	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11155267	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs198646	0.81[AMR][1000 genomes]
rs198653	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs198657	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs198668	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs198675	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs765874	0.87[ASN][1000 genomes]
rs765875	0.86[ASN][1000 genomes]
rs9376711	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830829	chr6:143058408-143218077	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv538459	chr6:143165802-143360098	Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143188600-143206200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:143189400-143201400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:143189400-143205400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr6:143189400-143205800	Weak transcription	Fetal Stomach	stomach
5	chr6:143189600-143198400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr6:143189600-143204200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:143191200-143198800	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr6:143191200-143205600	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr6:143191600-143199600	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:143193400-143203800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:143193600-143198600	Weak transcription	Brain Substantia Nigra	brain
12	chr6:143193600-143200800	Weak transcription	Fetal Thymus	thymus
13	chr6:143193600-143201400	Weak transcription	NHLF	lung
14	chr6:143193600-143204200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:143193800-143199600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:143194000-143199000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:143194000-143199200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr6:143194000-143199600	Weak transcription	NHDF-Ad	bronchial
19	chr6:143194000-143203000	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr6:143194200-143198800	Weak transcription	Brain Anterior Caudate	brain
21	chr6:143194200-143198800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr6:143194200-143199000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:143194200-143199200	Weak transcription	Brain Angular Gyrus	brain
24	chr6:143194200-143202200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:143194200-143204000	Weak transcription	Colon Smooth Muscle	Colon
26	chr6:143194200-143204600	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:143194400-143198800	Weak transcription	Brain Hippocampus Middle	brain
28	chr6:143194400-143199600	Weak transcription	Esophagus	oesophagus
29	chr6:143195200-143200800	Weak transcription	HSMM	muscle
30	chr6:143195200-143204200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr6:143195200-143206000	Weak transcription	Aorta	Aorta
32	chr6:143195400-143198600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr6:143195600-143199000	Enhancers	Primary T killer memory cells from peripheral blood	blood
34	chr6:143196000-143198400	Weak transcription	Primary B cells from cord blood	blood
35	chr6:143196000-143199000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr6:143196000-143201000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
37	chr6:143196000-143202800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:143196200-143199600	Weak transcription	HSMMtube	muscle
39	chr6:143196200-143204400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:143196200-143205200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr6:143196200-143205600	Weak transcription	HUVEC	blood vessel
42	chr6:143196400-143198800	Weak transcription	Fetal Brain Male	brain
43	chr6:143196400-143199000	Weak transcription	Primary hematopoietic stem cells	blood
44	chr6:143196400-143199600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr6:143196400-143199600	Weak transcription	Left Ventricle	heart
46	chr6:143196400-143199600	Weak transcription	Psoas Muscle	Psoas
47	chr6:143196400-143199800	Weak transcription	Right Atrium	heart
48	chr6:143196400-143202000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:143196400-143202600	Weak transcription	NH-A	brain
50	chr6:143196400-143202800	Weak transcription	Placenta	Placenta

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