Variant report

Variant	rs6776402
Chromosome Location	chr3:142288199-142288200
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:142282794..142284400-chr3:142286449..142288968,2	K562	blood:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10935463	0.81[EUR][1000 genomes]
rs1129391	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11708470	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11715514	0.82[EUR][1000 genomes]
rs11718899	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11916455	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11923612	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12629001	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12629713	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12634255	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12638158	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12639363	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13063075	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13065800	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13066441	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13068397	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13070239	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072346	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13072355	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13075259	0.81[EUR][1000 genomes]
rs13085247	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13085261	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13089219	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13092234	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092593	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13093304	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13099184	0.81[EUR][1000 genomes]
rs2227929	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2227931	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3923464	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4256152	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4558780	0.83[EUR][1000 genomes]
rs4582075	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs57299906	0.83[ASN][1000 genomes]
rs6440085	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7432464	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7636909	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7641914	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][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	nsv877556	chr3:141898980-142331360	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv877558	chr3:142123841-142331360	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv877559	chr3:142132749-142331360	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv877560	chr3:142132749-142362179	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv877561	chr3:142152925-142331360	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
6	nsv932989	chr3:142204208-142423305	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
7	nsv591919	chr3:142219542-142308070	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142231600-142295800	Weak transcription	Small Intestine	intestine
2	chr3:142244400-142295600	Weak transcription	Fetal Heart	heart
3	chr3:142253800-142296400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:142269200-142292600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr3:142272600-142296200	Weak transcription	Brain Angular Gyrus	brain
6	chr3:142272600-142296200	Weak transcription	Psoas Muscle	Psoas
7	chr3:142272800-142293400	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr3:142274800-142296200	Weak transcription	NHLF	lung
9	chr3:142274800-142296400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:142275000-142293600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:142275600-142296400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr3:142276000-142291200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:142276200-142288200	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr3:142276800-142296600	Weak transcription	Ovary	ovary
15	chr3:142277400-142296600	Weak transcription	Esophagus	oesophagus
16	chr3:142278400-142295800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:142278400-142296200	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:142279200-142296400	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr3:142279800-142295600	Weak transcription	Thymus	Thymus
20	chr3:142280200-142296200	Weak transcription	Fetal Lung	lung
21	chr3:142282000-142293600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr3:142282200-142296200	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr3:142282400-142292000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr3:142282600-142296200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr3:142282800-142296400	Weak transcription	Fetal Kidney	kidney
26	chr3:142283800-142291400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:142283800-142296400	Weak transcription	Colonic Mucosa	Colon
28	chr3:142284000-142294400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr3:142284000-142295800	Weak transcription	HUVEC	blood vessel
30	chr3:142284000-142296000	Weak transcription	Adipose Nuclei	Adipose
31	chr3:142284200-142293600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr3:142284200-142296400	Weak transcription	Left Ventricle	heart
33	chr3:142284400-142290200	Weak transcription	HSMMtube	muscle
34	chr3:142284600-142293600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr3:142285000-142291800	Weak transcription	Stomach Smooth Muscle	stomach
36	chr3:142285000-142292400	Weak transcription	GM12878-XiMat	blood
37	chr3:142285000-142294400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr3:142285000-142294400	Weak transcription	Osteobl	bone
39	chr3:142285200-142289600	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr3:142285200-142291800	Weak transcription	A549	lung
41	chr3:142285200-142293600	Weak transcription	Duodenum Mucosa	Duodenum
42	chr3:142285200-142294000	Weak transcription	Brain Anterior Caudate	brain
43	chr3:142285200-142294200	Weak transcription	Fetal Thymus	thymus
44	chr3:142285200-142294400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr3:142285200-142294400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr3:142285200-142294400	Weak transcription	NH-A	brain
47	chr3:142285200-142294800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr3:142285200-142295600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr3:142285200-142295600	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr3:142285200-142295600	Weak transcription	HSMM	muscle

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