Variant report

Variant	rs9502237
Chromosome Location	chr6:4780925-4780926
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4773447..4776687-chr6:4777915..4782551,4	MCF-7	breast:
2	chr6:4780165..4781878-chr6:4793453..4796375,2	MCF-7	breast:
3	chr6:4779066..4782355-chr6:4795807..4798992,3	K562	blood:
4	chr6:4488845..4492110-chr6:4777740..4781440,3	MCF-7	breast:
5	chr6:4690130..4692411-chr6:4780659..4782960,2	K562	blood:
6	chr6:4778081..4781516-chr6:4787216..4791667,5	MCF-7	breast:
7	chr6:4778862..4780969-chr6:4783105..4785943,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153046	Chromatin interaction
ENSG00000260239	Chromatin interaction
ENSG00000236336	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs58544878	0.96[EUR][1000 genomes]
rs60731840	0.94[EUR][1000 genomes]
rs62384848	0.82[EUR][1000 genomes]
rs62384849	0.90[EUR][1000 genomes]
rs62384850	0.94[EUR][1000 genomes]
rs62384852	0.85[EUR][1000 genomes]
rs62384853	0.94[EUR][1000 genomes]
rs62384855	0.85[EUR][1000 genomes]
rs6907313	0.93[EUR][1000 genomes]
rs6908435	0.93[EUR][1000 genomes]
rs6921417	0.91[EUR][1000 genomes]
rs6922125	0.81[EUR][1000 genomes]
rs6927577	0.93[EUR][1000 genomes]
rs9502236	0.94[EUR][1000 genomes]
rs9504248	0.91[EUR][1000 genomes]
rs9689461	0.94[EUR][1000 genomes]
rs9689911	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv3429586	chr6:4719363-4792438	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4777800-4783600	Weak transcription	Lung	lung
2	chr6:4777800-4789000	Weak transcription	Pancreas	Pancrea
3	chr6:4778000-4782400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr6:4778200-4781000	Weak transcription	Osteobl	bone
5	chr6:4778200-4781400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:4778200-4781600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:4778200-4785000	Weak transcription	Psoas Muscle	Psoas
8	chr6:4778200-4787000	Weak transcription	Thymus	Thymus
9	chr6:4778400-4781000	Weak transcription	Fetal Kidney	kidney
10	chr6:4778400-4781200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:4778400-4781200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:4778400-4781400	Weak transcription	Brain Substantia Nigra	brain
13	chr6:4778400-4781400	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:4778400-4781400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr6:4778400-4781400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:4778400-4781400	Weak transcription	Right Ventricle	heart
17	chr6:4778400-4782000	Weak transcription	Placenta	Placenta
18	chr6:4778400-4782200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:4778400-4782400	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr6:4778400-4782600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:4778400-4783000	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr6:4778400-4785000	Weak transcription	Left Ventricle	heart
23	chr6:4778400-4785000	Weak transcription	Spleen	Spleen
24	chr6:4778400-4787000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:4778400-4787000	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr6:4778400-4787000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:4778400-4789000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:4778400-4789600	Weak transcription	Stomach Smooth Muscle	stomach
29	chr6:4778400-4790000	Weak transcription	Stomach Mucosa	stomach
30	chr6:4778600-4781400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr6:4778600-4781400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr6:4778600-4781400	Weak transcription	Brain Hippocampus Middle	brain
33	chr6:4778600-4781400	Weak transcription	Fetal Lung	lung
34	chr6:4778600-4788800	Weak transcription	Adipose Nuclei	Adipose
35	chr6:4778600-4790000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr6:4778800-4781000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr6:4778800-4781400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr6:4778800-4782400	Weak transcription	Fetal Heart	heart
39	chr6:4779000-4781200	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr6:4779200-4781200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr6:4779200-4781600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
42	chr6:4779400-4781000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
43	chr6:4779400-4781200	Weak transcription	Primary B cells from cord blood	blood
44	chr6:4779400-4781600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:4779400-4782000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr6:4779600-4781400	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr6:4779600-4783200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:4779800-4781400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:4779800-4781600	Weak transcription	A549	lung
50	chr6:4779800-4781800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell

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