Variant report

Variant	rs9885836
Chromosome Location	chr6:151009533-151009534
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:151007139..151009866-chr6:151010268..151011885,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10872666	0.84[AMR][1000 genomes]
rs17080073	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17080108	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2345745	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4036092	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4869926	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4869927	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4869928	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4869929	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4869930	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4869931	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55646755	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs58824807	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59155780	0.86[AFR][1000 genomes]
rs59466561	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6899782	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6908127	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6929743	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73010188	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7738394	0.88[AFR][1000 genomes]
rs7749222	0.88[AFR][1000 genomes]
rs9478775	0.83[AMR][1000 genomes]
rs9478780	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9478783	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9480514	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9480526	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9480528	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9480529	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9480530	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9480531	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9480533	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9885650	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9885699	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
2	chr6:150990600-151016600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:150990800-151011800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:151000800-151010000	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:151003600-151011400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:151003800-151015000	Weak transcription	Brain Substantia Nigra	brain
7	chr6:151004800-151012000	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr6:151005000-151017400	Weak transcription	Aorta	Aorta
9	chr6:151005800-151018400	Weak transcription	Psoas Muscle	Psoas
10	chr6:151006000-151018400	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr6:151006600-151011400	Enhancers	Primary B cells from cord blood	blood
12	chr6:151006600-151011800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:151006600-151011800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:151006600-151014600	Weak transcription	Right Atrium	heart
15	chr6:151006800-151017200	Weak transcription	Fetal Stomach	stomach
16	chr6:151007200-151011200	Weak transcription	GM12878-XiMat	blood
17	chr6:151007400-151014800	Weak transcription	Thymus	Thymus
18	chr6:151007600-151009800	Enhancers	Fetal Muscle Leg	muscle
19	chr6:151008000-151009800	Enhancers	Stomach Mucosa	stomach
20	chr6:151008000-151011400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:151008000-151011400	Weak transcription	Left Ventricle	heart
22	chr6:151008000-151012200	Enhancers	HUVEC	blood vessel
23	chr6:151008200-151009600	Enhancers	Adipose Nuclei	Adipose
24	chr6:151008200-151009800	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr6:151008200-151011400	Weak transcription	Spleen	Spleen
26	chr6:151008400-151012200	Weak transcription	Colon Smooth Muscle	Colon
27	chr6:151008800-151009800	Enhancers	Small Intestine	intestine
28	chr6:151008800-151016600	Weak transcription	Fetal Thymus	thymus
29	chr6:151009000-151009600	Weak transcription	Ovary	ovary
30	chr6:151009000-151011400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr6:151009000-151014000	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr6:151009000-151014600	Weak transcription	Esophagus	oesophagus
33	chr6:151009000-151014600	Weak transcription	Lung	lung
34	chr6:151009000-151018400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr6:151009000-151021200	Weak transcription	Fetal Muscle Trunk	muscle
36	chr6:151009200-151009800	Enhancers	Placenta	Placenta
37	chr6:151009400-151011400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:151009400-151011400	Weak transcription	Fetal Kidney	kidney
39	chr6:151009400-151011800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:151009400-151013000	Weak transcription	Rectal Smooth Muscle	rectum
41	chr6:151009400-151015000	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr6:151009400-151016800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:151009400-151017200	Weak transcription	Brain Cingulate Gyrus	brain
44	chr6:151009400-151017200	Weak transcription	Fetal Lung	lung

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