Variant report

Variant	rs6742681
Chromosome Location	chr2:20395200-20395201
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:20312716..20316154-chr2:20394135..20396612,3	MCF-7	breast:
2	chr2:20393923..20396830-chr2:20398334..20400195,2	K562	blood:
3	chr2:20389942..20391979-chr2:20394528..20396636,2	K562	blood:
4	chr2:20310761..20313054-chr2:20394708..20396754,2	MCF-7	breast:
5	chr2:20380951..20386083-chr2:20391129..20397009,8	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11096646	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11895809	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12615923	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13016862	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2348475	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2348477	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2348478	0.85[ASN][1000 genomes]
rs35363812	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35811865	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35830553	0.83[ASN][1000 genomes]
rs35973557	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36027823	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4350703	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4432408	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6742663	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6749689	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6756290	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[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	nsv1012841	chr2:20328894-20415168	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1000323	chr2:20336237-20419923	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20384600-20400000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr2:20386200-20396000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr2:20386200-20401400	Weak transcription	Spleen	Spleen
4	chr2:20386600-20396000	Weak transcription	Fetal Kidney	kidney
5	chr2:20386600-20401400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr2:20387600-20395200	Enhancers	HepG2	liver
7	chr2:20388600-20400400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr2:20389200-20413600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr2:20389400-20398400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr2:20389800-20397600	Weak transcription	Lung	lung
11	chr2:20389800-20400400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr2:20390400-20396000	Weak transcription	NHEK	skin
13	chr2:20390600-20395200	Enhancers	Stomach Mucosa	stomach
14	chr2:20390600-20400200	Weak transcription	HMEC	breast
15	chr2:20391000-20403600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:20391200-20396000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr2:20391200-20396400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr2:20391200-20396800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr2:20391600-20395800	Weak transcription	A549	lung
20	chr2:20391600-20400400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr2:20391600-20400600	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr2:20391600-20400600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr2:20391600-20400800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr2:20391600-20402400	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr2:20391600-20404800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr2:20391800-20395400	Weak transcription	Esophagus	oesophagus
27	chr2:20391800-20396200	Weak transcription	Fetal Muscle Leg	muscle
28	chr2:20391800-20398000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr2:20391800-20398600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr2:20391800-20400600	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr2:20391800-20402200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr2:20391800-20423200	Weak transcription	Right Atrium	heart
33	chr2:20392000-20396000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr2:20392000-20399800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr2:20392000-20400600	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr2:20392200-20396000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr2:20392800-20401600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr2:20393000-20395200	Weak transcription	Pancreas	Pancrea
39	chr2:20393000-20395200	Weak transcription	Small Intestine	intestine
40	chr2:20393000-20396400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr2:20394000-20398000	Enhancers	Fetal Lung	lung
42	chr2:20394200-20395200	Enhancers	Rectal Mucosa Donor 31	rectum
43	chr2:20394200-20395400	Enhancers	Gastric	stomach
44	chr2:20394400-20397200	Enhancers	Fetal Intestine Small	intestine
45	chr2:20394400-20397400	Enhancers	Fetal Intestine Large	intestine
46	chr2:20394400-20400200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr2:20394600-20396000	Active TSS	Colonic Mucosa	Colon
48	chr2:20394600-20396000	Weak transcription	Placenta	Placenta
49	chr2:20394600-20396000	Weak transcription	Fetal Stomach	stomach
50	chr2:20394600-20396600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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