Variant report

Variant	rs56859590
Chromosome Location	chr6:149904462-149904463
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149902583..149905238-chr6:149907236..149909070,2	K562	blood:
2	chr6:149886275..149889014-chr6:149903385..149907051,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000055211	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11963941	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964790	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964826	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087440	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087477	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087520	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35077558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35515786	1.00[AFR][1000 genomes]
rs57065071	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57925355	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61666489	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926725	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926874	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938702	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602752	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602754	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604736	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604737	0.90[AFR][1000 genomes]
rs73604743	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604754	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604776	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604784	1.00[AFR][1000 genomes]
rs73604790	1.00[AFR][1000 genomes]
rs73604795	1.00[AFR][1000 genomes]
rs73604799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606715	1.00[AFR][1000 genomes]
rs73606737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606738	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746594	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7771139	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7773304	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9689443	1.00[AFR][1000 genomes]
rs9766104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9767369	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv289	chr6:149864898-149998818	Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv5534	chr6:149864898-149998818	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1791928	chr6:149903597-149913164	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv1794633	chr6:149903597-149944908	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	esv2566421	chr6:149903988-149905566	Strong transcription Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149888400-149911600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:149888600-149905200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:149888600-149907600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:149888600-149909800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:149888600-149912800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:149888600-149922000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr6:149888800-149904800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:149888800-149914800	Weak transcription	A549	lung
9	chr6:149889000-149905400	Weak transcription	HSMMtube	muscle
10	chr6:149889000-149908400	Weak transcription	Pancreas	Pancrea
11	chr6:149889000-149928000	Weak transcription	Stomach Mucosa	stomach
12	chr6:149889200-149919600	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr6:149889400-149911800	Weak transcription	Psoas Muscle	Psoas
14	chr6:149889400-149924200	Weak transcription	Fetal Heart	heart
15	chr6:149889600-149914200	Weak transcription	Hela-S3	cervix
16	chr6:149889600-149931400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr6:149891200-149911200	Weak transcription	Small Intestine	intestine
18	chr6:149893800-149926600	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr6:149894200-149920000	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr6:149895600-149923200	Strong transcription	Dnd41	blood
21	chr6:149897200-149909400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:149897400-149909000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:149897600-149906800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr6:149897600-149908000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr6:149898400-149919200	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr6:149898600-149908400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:149898600-149908400	Weak transcription	Spleen	Spleen
28	chr6:149898600-149927400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:149898800-149906600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:149898800-149907200	Weak transcription	Thymus	Thymus
31	chr6:149898800-149913800	Weak transcription	Right Ventricle	heart
32	chr6:149899000-149905600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr6:149899200-149915000	Weak transcription	Esophagus	oesophagus
34	chr6:149899200-149929800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:149899400-149907400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:149900200-149926800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:149900400-149910000	Strong transcription	Primary monocytes fromperipheralblood	blood
38	chr6:149900400-149923200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr6:149901000-149905600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr6:149901000-149909800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr6:149901000-149910000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr6:149901000-149913200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
43	chr6:149901000-149919200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:149901000-149920200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:149901000-149923200	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr6:149901000-149923200	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr6:149901200-149905800	Strong transcription	Duodenum Mucosa	Duodenum
48	chr6:149901200-149909800	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr6:149901200-149909800	Strong transcription	Adipose Nuclei	Adipose
50	chr6:149901200-149910000	Strong transcription	Liver	Liver

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