Variant report

Variant	rs198679
Chromosome Location	chr6:143197305-143197306
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143192752..143194574-chr6:143196705..143198471,2	MCF-7	breast:
2	chr6:143167641..143169148-chr6:143195736..143197649,2	K562	blood:
3	chr6:143196732..143198934-chr6:143203908..143205844,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs107118	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs107119	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13211716	0.89[ASN][1000 genomes]
rs198669	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs198670	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs198671	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs198673	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs198674	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs198676	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs198680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2050311	0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs4896599	0.86[ASN][1000 genomes]
rs67253362	0.88[ASN][1000 genomes]
rs6925325	0.83[ASN][1000 genomes]
rs8180684	0.89[ASN][1000 genomes]
rs9321878	0.91[CHB][hapmap];0.82[ASN][1000 genomes]
rs9376710	0.87[ASN][1000 genomes]
rs9390025	0.87[ASN][1000 genomes]
rs9390026	0.89[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	chr6:143189400-143197400	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr6:143189400-143198000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
4	chr6:143189400-143201400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:143189400-143205400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr6:143189400-143205800	Weak transcription	Fetal Stomach	stomach
7	chr6:143189600-143198400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:143189600-143204200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:143191200-143198800	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr6:143191200-143205600	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr6:143191600-143199600	Weak transcription	Fetal Muscle Leg	muscle
12	chr6:143191800-143197800	Enhancers	Primary T cells from cord blood	blood
13	chr6:143193000-143197800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:143193400-143203800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:143193600-143198600	Weak transcription	Brain Substantia Nigra	brain
16	chr6:143193600-143200800	Weak transcription	Fetal Thymus	thymus
17	chr6:143193600-143201400	Weak transcription	NHLF	lung
18	chr6:143193600-143204200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:143193800-143199600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:143194000-143199000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr6:143194000-143199200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:143194000-143199600	Weak transcription	NHDF-Ad	bronchial
23	chr6:143194000-143203000	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr6:143194200-143198800	Weak transcription	Brain Anterior Caudate	brain
25	chr6:143194200-143198800	Weak transcription	Brain Cingulate Gyrus	brain
26	chr6:143194200-143199000	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr6:143194200-143199200	Weak transcription	Brain Angular Gyrus	brain
28	chr6:143194200-143202200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:143194200-143204000	Weak transcription	Colon Smooth Muscle	Colon
30	chr6:143194200-143204600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr6:143194400-143197600	Weak transcription	Thymus	Thymus
32	chr6:143194400-143198800	Weak transcription	Brain Hippocampus Middle	brain
33	chr6:143194400-143199600	Weak transcription	Esophagus	oesophagus
34	chr6:143195000-143197800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
35	chr6:143195200-143200800	Weak transcription	HSMM	muscle
36	chr6:143195200-143204200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr6:143195200-143206000	Weak transcription	Aorta	Aorta
38	chr6:143195400-143198600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr6:143195600-143199000	Enhancers	Primary T killer memory cells from peripheral blood	blood
40	chr6:143196000-143197400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr6:143196000-143198400	Weak transcription	Primary B cells from cord blood	blood
42	chr6:143196000-143199000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:143196000-143201000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
44	chr6:143196000-143202800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:143196200-143199600	Weak transcription	HSMMtube	muscle
46	chr6:143196200-143204400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:143196200-143205200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr6:143196200-143205600	Weak transcription	HUVEC	blood vessel
49	chr6:143196400-143198800	Weak transcription	Fetal Brain Male	brain
50	chr6:143196400-143199000	Weak transcription	Primary hematopoietic stem cells	blood

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