Variant report

Variant	rs35629999
Chromosome Location	chr6:15384698-15384699
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15384574..15387148-chr6:15391772..15394376,2	MCF-7	breast:
2	chr2:20646007..20648092-chr6:15383302..15385325,2	MCF-7	breast:
3	chr6:15378624..15384644-chr6:15384689..15387837,9	K562	blood:
4	chr6:15383937..15385749-chr6:15410927..15412841,2	MCF-7	breast:
5	chr6:15384269..15386438-chr6:15399614..15401132,2	K562	blood:
6	chr6:15371766..15374239-chr6:15383180..15385833,2	K562	blood:
7	chr6:15253847..15256230-chr6:15382765..15385020,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143878	Chromatin interaction
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10484355	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10949294	0.83[ASN][1000 genomes]
rs10949295	0.83[ASN][1000 genomes]
rs11756544	0.95[ASN][1000 genomes]
rs11757415	0.95[ASN][1000 genomes]
rs12211278	0.83[ASN][1000 genomes]
rs13192347	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13194410	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13195950	0.95[ASN][1000 genomes]
rs13205396	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13205612	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13208486	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13214720	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16876278	0.83[ASN][1000 genomes]
rs16876354	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17576233	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17576436	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17576710	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17637773	0.83[ASN][1000 genomes]
rs17638192	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17638720	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2237146	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2299051	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2299057	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34002211	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34764533	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35047303	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35139070	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35364784	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35734069	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35918625	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56123857	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56265026	0.83[ASN][1000 genomes]
rs61296041	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66478504	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6941859	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72836327	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7747437	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7767966	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1019927	chr6:15351240-15419257	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv538145	chr6:15351240-15419257	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15364600-15390200	Weak transcription	HepG2	liver
2	chr6:15365000-15402800	Weak transcription	Dnd41	blood
3	chr6:15365800-15384800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr6:15366600-15384800	Weak transcription	NH-A	brain
5	chr6:15366600-15385000	Weak transcription	Fetal Brain Female	brain
6	chr6:15367000-15384800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:15367400-15389400	Weak transcription	Ovary	ovary
8	chr6:15370400-15384800	Weak transcription	Pancreas	Pancrea
9	chr6:15371200-15384800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:15371800-15389000	Weak transcription	Adipose Nuclei	Adipose
11	chr6:15372000-15386600	Weak transcription	Fetal Intestine Small	intestine
12	chr6:15374200-15389200	Weak transcription	HSMM	muscle
13	chr6:15374600-15385000	Weak transcription	Small Intestine	intestine
14	chr6:15375000-15385000	Weak transcription	Fetal Kidney	kidney
15	chr6:15375600-15385200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr6:15375800-15384800	Weak transcription	Fetal Stomach	stomach
17	chr6:15375800-15385200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr6:15375800-15386400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:15376000-15384800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr6:15376000-15384800	Weak transcription	Right Atrium	heart
21	chr6:15376000-15389000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr6:15376800-15390000	Weak transcription	Aorta	Aorta
23	chr6:15377000-15385000	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr6:15377000-15389000	Weak transcription	Stomach Smooth Muscle	stomach
25	chr6:15377200-15384800	Weak transcription	Lung	lung
26	chr6:15377200-15385000	Weak transcription	Esophagus	oesophagus
27	chr6:15377200-15387000	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr6:15377200-15387800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:15377400-15385000	Weak transcription	Fetal Heart	heart
30	chr6:15378600-15385000	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr6:15378600-15388200	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr6:15378600-15390400	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr6:15379000-15385000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:15379400-15385800	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr6:15379400-15386400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr6:15379400-15390000	Enhancers	HUES6 Cell Line	embryonic stem cell
37	chr6:15379800-15387000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr6:15380000-15385000	Weak transcription	Colon Smooth Muscle	Colon
39	chr6:15380000-15386000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr6:15380200-15384800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:15380200-15385000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr6:15380400-15388400	Enhancers	Primary B cells from peripheral blood	blood
43	chr6:15380800-15384800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr6:15380800-15389800	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr6:15381000-15384800	Weak transcription	Brain Anterior Caudate	brain
46	chr6:15381000-15385000	Weak transcription	Fetal Muscle Leg	muscle
47	chr6:15381600-15388200	Enhancers	H9 Cell Line	embryonic stem cell
48	chr6:15381600-15390400	Enhancers	iPS-20b Cell Line	embryonic stem cell
49	chr6:15381800-15385000	Weak transcription	Thymus	Thymus
50	chr6:15381800-15385000	Weak transcription	K562	blood

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