Variant report

Variant	rs6821054
Chromosome Location	chr4:147097709-147097710
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	chr4:147096162..147099903-chr4:147161380..147165203,4	MCF-7	breast:
2	chr4:147095588..147099041-chr4:147101501..147104102,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-6L6.2.1-3	chr4:147097320-147097838	NONHSAT098665

Variant related genes	Relation type
ENSG00000251010	Chromatin interaction
ENSG00000164167	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10000860	0.93[EUR][1000 genomes]
rs10000861	0.93[EUR][1000 genomes]
rs10000865	0.93[EUR][1000 genomes]
rs10010356	0.81[EUR][1000 genomes]
rs10013229	0.93[EUR][1000 genomes]
rs10015161	0.93[EUR][1000 genomes]
rs10021707	0.93[EUR][1000 genomes]
rs10028478	0.93[EUR][1000 genomes]
rs10029288	0.93[EUR][1000 genomes]
rs10029293	0.81[EUR][1000 genomes]
rs10031419	0.93[EUR][1000 genomes]
rs10519778	0.93[EUR][1000 genomes]
rs11932480	0.93[EUR][1000 genomes]
rs11936772	0.93[EUR][1000 genomes]
rs11946104	0.93[EUR][1000 genomes]
rs13435847	0.93[EUR][1000 genomes]
rs13435855	0.93[EUR][1000 genomes]
rs17021122	1.00[EUR][1000 genomes]
rs17021126	1.00[EUR][1000 genomes]
rs17021129	1.00[EUR][1000 genomes]
rs17021149	0.93[EUR][1000 genomes]
rs17021150	0.93[EUR][1000 genomes]
rs17021152	0.93[EUR][1000 genomes]
rs17021155	1.00[EUR][1000 genomes]
rs17021253	0.86[EUR][1000 genomes]
rs2082096	1.00[EUR][1000 genomes]
rs2115788	0.93[EUR][1000 genomes]
rs28438609	0.86[EUR][1000 genomes]
rs28440804	1.00[EUR][1000 genomes]
rs28495089	0.93[EUR][1000 genomes]
rs28535638	0.93[EUR][1000 genomes]
rs28602879	0.93[EUR][1000 genomes]
rs28772704	0.93[EUR][1000 genomes]
rs28794473	0.93[EUR][1000 genomes]
rs28862630	0.93[EUR][1000 genomes]
rs60125851	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60129600	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6824434	1.00[EUR][1000 genomes]
rs6841212	1.00[EUR][1000 genomes]
rs6841228	1.00[EUR][1000 genomes]
rs6841426	1.00[EUR][1000 genomes]
rs6846309	1.00[EUR][1000 genomes]
rs6852939	1.00[EUR][1000 genomes]
rs7356451	0.93[EUR][1000 genomes]
rs7356484	0.93[EUR][1000 genomes]
rs7655300	0.93[EUR][1000 genomes]
rs7663853	0.93[EUR][1000 genomes]
rs7671076	0.93[EUR][1000 genomes]
rs7680354	0.93[EUR][1000 genomes]
rs7681269	0.93[EUR][1000 genomes]
rs7681704	0.93[EUR][1000 genomes]
rs7691151	0.93[EUR][1000 genomes]
rs7693341	1.00[EUR][1000 genomes]
rs7698706	0.93[EUR][1000 genomes]
rs867775	1.00[EUR][1000 genomes]
rs883857	1.00[EUR][1000 genomes]
rs9284682	0.85[EUR][1000 genomes]
rs9308197	0.93[EUR][1000 genomes]
rs9308198	0.93[EUR][1000 genomes]
rs9884598	0.93[EUR][1000 genomes]
rs9992451	0.86[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	nsv461674	chr4:147047072-147143572	Weak transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv595650	chr4:147047072-147143572	Genic enhancers Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1018859	chr4:147055618-147138397	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:147096200-147098000	Active TSS	Brain Inferior Temporal Lobe	brain
2	chr4:147096200-147098000	Active TSS	Rectal Smooth Muscle	rectum
3	chr4:147096400-147097800	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr4:147096400-147097800	Active TSS	Duodenum Mucosa	Duodenum
5	chr4:147096400-147097800	Active TSS	Skeletal Muscle Male	skeletal muscle
6	chr4:147096400-147097800	Active TSS	NHDF-Ad	bronchial
7	chr4:147096400-147098000	Active TSS	Brain Substantia Nigra	brain
8	chr4:147096400-147098000	Active TSS	A549	lung
9	chr4:147096400-147098000	Active TSS	K562	blood
10	chr4:147096400-147098200	Active TSS	NH-A	brain
11	chr4:147096400-147098400	Active TSS	GM12878-XiMat	blood
12	chr4:147096600-147097800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
13	chr4:147096600-147097800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr4:147096600-147097800	Active TSS	Breast Myoepithelial Primary Cells	Breast
15	chr4:147096600-147097800	Active TSS	Brain Cingulate Gyrus	brain
16	chr4:147096600-147097800	Active TSS	Duodenum Smooth Muscle	Duodenum
17	chr4:147096600-147097800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
18	chr4:147096600-147097800	Active TSS	Fetal Intestine Large	intestine
19	chr4:147096600-147097800	Active TSS	Fetal Muscle Trunk	muscle
20	chr4:147096600-147097800	Active TSS	HSMMtube	muscle
21	chr4:147096600-147097800	Active TSS	NHEK	skin
22	chr4:147096600-147098000	Active TSS	H1 Cell Line	embryonic stem cell
23	chr4:147096600-147098000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr4:147096600-147098000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr4:147096600-147098000	Active TSS	HUES6 Cell Line	embryonic stem cell
26	chr4:147096600-147098000	Active TSS	iPS-15b Cell Line	embryonic stem cell
27	chr4:147096600-147098000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:147096600-147098000	Active TSS	Primary T killer memory cells from peripheral blood	blood
29	chr4:147096600-147098000	Active TSS	Aorta	Aorta
30	chr4:147096600-147098000	Active TSS	Fetal Kidney	kidney
31	chr4:147096600-147098000	Active TSS	Fetal Stomach	stomach
32	chr4:147096600-147098000	Active TSS	Stomach Smooth Muscle	stomach
33	chr4:147096600-147098000	Active TSS	HMEC	breast
34	chr4:147096600-147098000	Active TSS	NHLF	lung
35	chr4:147096600-147098200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr4:147096600-147098200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr4:147096600-147098200	Active TSS	Brain Germinal Matrix	brain
38	chr4:147096600-147098200	Active TSS	Fetal Muscle Leg	muscle
39	chr4:147096600-147098200	Active TSS	Fetal Thymus	thymus
40	chr4:147096600-147098200	Active TSS	Ovary	ovary
41	chr4:147096600-147098200	Active TSS	Right Atrium	heart
42	chr4:147096600-147098200	Active TSS	Thymus	Thymus
43	chr4:147096600-147098200	Active TSS	HSMM	muscle
44	chr4:147096600-147098400	Active TSS	iPS-20b Cell Line	embryonic stem cell
45	chr4:147096600-147098400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr4:147096600-147098400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr4:147096600-147098600	Active TSS	ES-I3 Cell Line	embryonic stem cell
48	chr4:147096800-147097800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr4:147096800-147097800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr4:147096800-147097800	Active TSS	H9 Cell Line	embryonic stem cell

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