Variant report

Variant	rs73399338
Chromosome Location	chr6:26309878-26309879
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:26309632..26313347-chr6:27114067..27115956,3	MCF-7	breast:
2	chr6:26309822..26312152-chr6:27114405..27116327,2	MCF-7	breast:
3	chr6:26309646..26311528-chr6:26321408..26324123,2	MCF-7	breast:
4	chr6:26309854..26311827-chr6:30584744..30586580,2	K562	blood:
5	chr6:26305172..26308456-chr6:26309318..26312208,7	MCF-7	breast:
6	chr6:26308793..26311615-chr6:26576648..26578287,2	K562	blood:

Variant related genes	Relation type
ENSG00000197903	Chromatin interaction
ENSG00000220875	Chromatin interaction
ENSG00000204569	Chromatin interaction
ENSG00000204568	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000184825	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs59376350	1.00[AMR][1000 genomes]
rs59941327	1.00[AMR][1000 genomes]
rs60123309	1.00[AMR][1000 genomes]
rs60479541	1.00[AMR][1000 genomes]
rs60632935	1.00[AMR][1000 genomes]
rs61605502	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6901777	1.00[AMR][1000 genomes]
rs73383165	1.00[AMR][1000 genomes]
rs73393407	1.00[AMR][1000 genomes]
rs73393431	1.00[AMR][1000 genomes]
rs73393433	1.00[AMR][1000 genomes]
rs73393455	1.00[AMR][1000 genomes]
rs73393462	1.00[AMR][1000 genomes]
rs73395318	1.00[AMR][1000 genomes]
rs73395332	1.00[AMR][1000 genomes]
rs73399361	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7748602	0.90[AFR][1000 genomes];1.00[AMR][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	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
5	nsv428137	chr6:25987413-26351920	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1181 gene(s)	inside rSNPs	diseases
6	nsv1028232	chr6:26005449-26319756	Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1171 gene(s)	inside rSNPs	diseases
7	nsv1015782	chr6:26026870-26323895	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1114 gene(s)	inside rSNPs	diseases
8	nsv1018665	chr6:26026870-26352046	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1116 gene(s)	inside rSNPs	diseases
9	nsv601173	chr6:26239404-26322524	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	184 gene(s)	inside rSNPs	diseases
10	nsv482729	chr6:26291011-26470898	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26305600-26310200	Weak transcription	Psoas Muscle	Psoas
2	chr6:26305600-26311400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:26305600-26313400	Weak transcription	Small Intestine	intestine
4	chr6:26305800-26310000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr6:26305800-26310200	Weak transcription	Fetal Intestine Small	intestine
6	chr6:26305800-26310600	Weak transcription	Liver	Liver
7	chr6:26305800-26311000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:26305800-26311600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr6:26305800-26312000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:26305800-26312400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:26306000-26310000	Weak transcription	Fetal Kidney	kidney
12	chr6:26306000-26310000	Weak transcription	NHLF	lung
13	chr6:26306000-26310400	Enhancers	HepG2	liver
14	chr6:26306000-26311000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr6:26306200-26310000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:26306200-26310600	Weak transcription	Brain Angular Gyrus	brain
17	chr6:26306200-26310600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr6:26306200-26310800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:26306200-26311000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr6:26306200-26311000	Weak transcription	Fetal Muscle Leg	muscle
21	chr6:26306200-26311200	Weak transcription	Fetal Stomach	stomach
22	chr6:26306200-26311200	Enhancers	HMEC	breast
23	chr6:26306200-26311600	Weak transcription	Brain Hippocampus Middle	brain
24	chr6:26306200-26311600	Weak transcription	Placenta	Placenta
25	chr6:26306200-26311600	Weak transcription	Stomach Smooth Muscle	stomach
26	chr6:26306200-26311800	Weak transcription	Fetal Lung	lung
27	chr6:26306200-26312000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr6:26306400-26310400	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr6:26306400-26310600	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr6:26306400-26311000	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr6:26306400-26311200	Weak transcription	Primary B cells from peripheral blood	blood
32	chr6:26306400-26311600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr6:26306400-26311600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:26306400-26312000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:26306800-26310000	Weak transcription	NHDF-Ad	bronchial
36	chr6:26306800-26310600	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr6:26306800-26310800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr6:26306800-26311800	Weak transcription	Duodenum Mucosa	Duodenum
39	chr6:26307400-26310000	Enhancers	NHEK	skin
40	chr6:26307600-26312200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:26307800-26311000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr6:26308000-26310800	Enhancers	Primary T killer memory cells from peripheral blood	blood
43	chr6:26308400-26311400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:26308400-26311800	Weak transcription	Dnd41	blood
45	chr6:26308600-26310200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr6:26308600-26311600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr6:26308600-26311600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:26308600-26312000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr6:26308600-26312200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr6:26308600-26313000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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