Variant report

Variant	rs12665389
Chromosome Location	chr6:36015094-36015095
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:36007067..36009357-chr6:36013224..36016098,2	MCF-7	breast:
2	chr6:36014769..36017173-chr6:36021904..36023808,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10947585	0.81[ASN][1000 genomes]
rs11755358	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11759192	1.00[CEU][hapmap];0.85[JPT][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12111171	1.00[CEU][hapmap];0.85[JPT][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12662129	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12664488	0.81[ASN][1000 genomes]
rs12664506	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17707124	1.00[YRI][hapmap]
rs17713154	1.00[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs17714205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3730326	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3804452	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs851006	0.82[JPT][hapmap];0.81[ASN][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	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv528432	chr6:35958871-36035354	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35997600-36021800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr6:35998000-36019200	Weak transcription	HSMM	muscle
3	chr6:35998200-36018400	Weak transcription	NHLF	lung
4	chr6:35998200-36018600	Weak transcription	NHDF-Ad	bronchial
5	chr6:35999000-36027600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:36000600-36020400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:36000600-36027400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:36003200-36027200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr6:36003800-36027600	Weak transcription	Colonic Mucosa	Colon
10	chr6:36005400-36020400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:36006200-36017800	Weak transcription	Hela-S3	cervix
12	chr6:36006200-36019200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:36006400-36019200	Weak transcription	Right Ventricle	heart
14	chr6:36006400-36039800	Weak transcription	Esophagus	oesophagus
15	chr6:36006600-36016200	Weak transcription	Thymus	Thymus
16	chr6:36006600-36016400	Weak transcription	Primary B cells from peripheral blood	blood
17	chr6:36006600-36016400	Weak transcription	Right Atrium	heart
18	chr6:36006600-36018200	Weak transcription	Fetal Thymus	thymus
19	chr6:36006600-36019200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:36006600-36020000	Weak transcription	Dnd41	blood
21	chr6:36007000-36017000	Weak transcription	GM12878-XiMat	blood
22	chr6:36007200-36016800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr6:36007200-36017400	Weak transcription	Primary B cells from cord blood	blood
24	chr6:36007200-36018200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr6:36007200-36021600	Weak transcription	Brain Anterior Caudate	brain
26	chr6:36007400-36017400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:36007400-36019200	Weak transcription	Fetal Lung	lung
28	chr6:36007400-36019400	Weak transcription	Fetal Stomach	stomach
29	chr6:36007400-36021800	Weak transcription	Brain Hippocampus Middle	brain
30	chr6:36007400-36027200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:36008000-36021800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr6:36008200-36022000	Weak transcription	Ovary	ovary
33	chr6:36008400-36018200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:36008600-36016200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr6:36008600-36016600	Weak transcription	Primary T cells from cord blood	blood
36	chr6:36008600-36022400	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr6:36008600-36027600	Weak transcription	Brain Substantia Nigra	brain
38	chr6:36009000-36017800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr6:36009000-36021000	Weak transcription	Liver	Liver
40	chr6:36009400-36016000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr6:36010200-36020200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:36010600-36015200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr6:36010600-36015800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr6:36010600-36016800	Weak transcription	Primary hematopoietic stem cells	blood
45	chr6:36010600-36016800	Weak transcription	HepG2	liver
46	chr6:36010800-36016400	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr6:36010800-36017000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr6:36010800-36017600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:36010800-36018000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr6:36010800-36018600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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