Variant report

Variant	rs4559105
Chromosome Location	chr6:128292392-128292393
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128290855..128292622-chr6:128292665..128294749,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1089653	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3190930	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35469349	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3933376	1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs41285280	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4341027	1.00[JPT][hapmap]
rs55743914	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7739912	1.00[JPT][hapmap]
rs802719	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs802725	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs802730	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs802731	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs802734	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs802746	0.93[AMR][1000 genomes];0.85[EUR][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	nsv1024516	chr6:128184182-128298278	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv604642	chr6:128278798-128351143	Strong transcription Genic enhancers Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128270600-128293400	Weak transcription	Fetal Muscle Leg	muscle
2	chr6:128272400-128292600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:128278800-128297200	Weak transcription	Ovary	ovary
4	chr6:128280400-128304600	Weak transcription	Fetal Brain Male	brain
5	chr6:128281000-128293000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:128285200-128292600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:128285600-128307400	Weak transcription	Aorta	Aorta
8	chr6:128286200-128292400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:128286200-128293000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:128286800-128297000	Weak transcription	Lung	lung
11	chr6:128287000-128292400	Weak transcription	NHEK	skin
12	chr6:128287000-128300200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:128287200-128292600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:128287200-128294200	Weak transcription	Fetal Intestine Small	intestine
15	chr6:128287200-128309000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:128287400-128293400	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:128287400-128297200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr6:128287600-128292600	Weak transcription	Fetal Heart	heart
19	chr6:128287600-128292600	Weak transcription	Pancreas	Pancrea
20	chr6:128287600-128297200	Weak transcription	Fetal Muscle Trunk	muscle
21	chr6:128287600-128308600	Weak transcription	Esophagus	oesophagus
22	chr6:128287800-128292600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
23	chr6:128287800-128292600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr6:128287800-128292600	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr6:128287800-128292800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:128287800-128293200	Weak transcription	Brain Anterior Caudate	brain
27	chr6:128287800-128303600	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr6:128288000-128293600	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr6:128288000-128296400	Weak transcription	Brain Angular Gyrus	brain
30	chr6:128288000-128304800	Weak transcription	Stomach Mucosa	stomach
31	chr6:128288000-128307600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:128288400-128292600	Weak transcription	HMEC	breast
33	chr6:128288600-128292400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:128288600-128292600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:128288600-128292600	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr6:128288600-128293400	Weak transcription	Gastric	stomach
37	chr6:128288600-128297000	Weak transcription	Colonic Mucosa	Colon
38	chr6:128288600-128305400	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr6:128288600-128306800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr6:128288600-128321800	Weak transcription	Small Intestine	intestine
41	chr6:128288800-128293000	Weak transcription	Adipose Nuclei	Adipose
42	chr6:128288800-128293000	Weak transcription	NHLF	lung
43	chr6:128288800-128303800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr6:128289000-128302200	Weak transcription	Brain Germinal Matrix	brain
45	chr6:128289000-128431000	Weak transcription	Psoas Muscle	Psoas
46	chr6:128289200-128292400	Weak transcription	Fetal Thymus	thymus
47	chr6:128289200-128292600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr6:128289200-128292800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:128289200-128293000	Weak transcription	Placenta	Placenta
50	chr6:128289200-128293000	Weak transcription	Fetal Stomach	stomach

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