Variant report

Variant	rs17086054
Chromosome Location	chr6:149706706-149706707
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149706464..149708710-chr6:149709911..149712355,2	MCF-7	breast:
2	chr6:149703892..149707802-chr6:149748749..149751962,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SUMO4-2	chr6:149704969-149707007	NONHSAT115498

Extended variants
information (count: 42 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17085985	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34024129	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35391071	1.00[EUR][1000 genomes]
rs35507156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55763048	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56126528	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56390023	1.00[EUR][1000 genomes]
rs56836556	1.00[EUR][1000 genomes]
rs57234155	1.00[EUR][1000 genomes]
rs57240808	1.00[EUR][1000 genomes]
rs58467138	1.00[EUR][1000 genomes]
rs59090184	0.87[AMR][1000 genomes]
rs59181586	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59582367	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60598581	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60923183	1.00[EUR][1000 genomes]
rs6926168	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6926360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6934491	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73604793	1.00[EUR][1000 genomes]
rs73779304	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779305	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779307	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779311	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779312	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779313	1.00[EUR][1000 genomes]
rs73779314	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779330	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779333	1.00[EUR][1000 genomes]
rs73779345	1.00[EUR][1000 genomes]
rs73779346	1.00[EUR][1000 genomes]
rs73779354	1.00[EUR][1000 genomes]
rs73779366	1.00[EUR][1000 genomes]
rs73779373	1.00[EUR][1000 genomes]
rs73779376	1.00[EUR][1000 genomes]
rs7740647	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7760102	1.00[EUR][1000 genomes]
rs7761612	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs935386	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149682600-149709200	Weak transcription	Psoas Muscle	Psoas
2	chr6:149686000-149709000	Weak transcription	Stomach Mucosa	stomach
3	chr6:149687800-149726400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:149695400-149709600	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr6:149697400-149708200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:149697600-149709000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:149697600-149713600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:149698400-149709600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:149698800-149707600	Strong transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:149699000-149706800	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr6:149699000-149707000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:149699000-149707200	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr6:149699000-149707800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:149700400-149709000	Weak transcription	Fetal Heart	heart
15	chr6:149700400-149728400	Weak transcription	Hela-S3	cervix
16	chr6:149700400-149732400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:149700600-149708000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:149700600-149709200	Weak transcription	Pancreas	Pancrea
19	chr6:149700600-149721200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:149700600-149721200	Weak transcription	Colonic Mucosa	Colon
21	chr6:149700600-149721200	Weak transcription	Right Ventricle	heart
22	chr6:149700600-149730800	Weak transcription	Fetal Brain Male	brain
23	chr6:149700800-149706800	Weak transcription	HMEC	breast
24	chr6:149700800-149721000	Weak transcription	K562	blood
25	chr6:149700800-149721200	Weak transcription	Aorta	Aorta
26	chr6:149700800-149732800	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr6:149701000-149710800	Weak transcription	NHDF-Ad	bronchial
28	chr6:149701200-149710200	Weak transcription	Esophagus	oesophagus
29	chr6:149701200-149721200	Weak transcription	Brain Cingulate Gyrus	brain
30	chr6:149701400-149707600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:149701400-149707600	Weak transcription	Colon Smooth Muscle	Colon
32	chr6:149701400-149709000	Weak transcription	Rectal Smooth Muscle	rectum
33	chr6:149701400-149710800	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr6:149701400-149717400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr6:149701400-149717800	Weak transcription	Fetal Kidney	kidney
36	chr6:149701400-149721200	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr6:149701400-149730800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr6:149701400-149734200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr6:149701600-149707800	Weak transcription	Small Intestine	intestine
40	chr6:149701600-149712600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr6:149701600-149733600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr6:149702200-149709200	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr6:149702400-149718800	Weak transcription	HUVEC	blood vessel
44	chr6:149702400-149721200	Weak transcription	Fetal Brain Female	brain
45	chr6:149702600-149707400	Weak transcription	A549	lung
46	chr6:149703000-149716000	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr6:149703200-149708000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr6:149703200-149709200	Weak transcription	Gastric	stomach
49	chr6:149703200-149709200	Weak transcription	Ovary	ovary
50	chr6:149703200-149709400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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