Variant report

Variant	rs72893671
Chromosome Location	chr3:45850783-45850784
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	chr3:45841159..45843943-chr3:45848484..45850929,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10490770	0.92[EUR][1000 genomes]
rs13071258	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13078854	0.92[EUR][1000 genomes]
rs13081482	0.86[EUR][1000 genomes]
rs17078346	0.86[EUR][1000 genomes]
rs17078348	0.86[EUR][1000 genomes]
rs17712877	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17713054	0.92[EUR][1000 genomes]
rs17763537	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17763569	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17763742	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34288077	0.88[EUR][1000 genomes]
rs34326463	0.94[EUR][1000 genomes]
rs34668658	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35044562	0.86[EUR][1000 genomes]
rs35081325	0.88[EUR][1000 genomes]
rs35508621	0.89[EUR][1000 genomes]
rs35624553	0.92[EUR][1000 genomes]
rs35652899	0.86[EUR][1000 genomes]
rs35731912	0.88[EUR][1000 genomes]
rs35896106	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67959919	0.89[EUR][1000 genomes]
rs71325088	0.92[EUR][1000 genomes]
rs73064425	0.88[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45838400-45860000	Weak transcription	Gastric	stomach
2	chr3:45842400-45857400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr3:45842400-45859200	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr3:45842400-45859800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr3:45842600-45854400	Weak transcription	Fetal Intestine Large	intestine
6	chr3:45843800-45856400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:45844000-45857400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:45845400-45853600	Weak transcription	Fetal Intestine Small	intestine
9	chr3:45845400-45858800	Weak transcription	Brain Germinal Matrix	brain
10	chr3:45846600-45857400	Weak transcription	Fetal Brain Female	brain
11	chr3:45847800-45871400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr3:45848000-45864400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr3:45848600-45860800	Weak transcription	Primary T cells from cord blood	blood
14	chr3:45849400-45857400	Weak transcription	Fetal Stomach	stomach
15	chr3:45849400-45857600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr3:45849400-45859000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr3:45849400-45864800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr3:45849400-45875200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:45849600-45857400	Weak transcription	HSMMtube	muscle
20	chr3:45849600-45857800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr3:45849600-45862400	Weak transcription	Fetal Lung	lung
22	chr3:45849800-45857400	Weak transcription	Stomach Smooth Muscle	stomach
23	chr3:45849800-45871800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr3:45850000-45851400	Strong transcription	Dnd41	blood
25	chr3:45850000-45857400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:45850000-45857600	Weak transcription	Fetal Muscle Leg	muscle
27	chr3:45850000-45859000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:45850000-45859000	Weak transcription	Brain Substantia Nigra	brain
29	chr3:45850000-45859800	Weak transcription	Small Intestine	intestine
30	chr3:45850200-45852000	Weak transcription	Fetal Thymus	thymus
31	chr3:45850200-45857400	Weak transcription	Brain Anterior Caudate	brain
32	chr3:45850200-45857400	Weak transcription	Psoas Muscle	Psoas
33	chr3:45850200-45857600	Weak transcription	Brain Angular Gyrus	brain
34	chr3:45850200-45857600	Weak transcription	Brain Hippocampus Middle	brain
35	chr3:45850200-45862200	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr3:45850200-45866200	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr3:45850200-45867800	Weak transcription	Brain Cingulate Gyrus	brain
38	chr3:45850400-45857600	Weak transcription	Aorta	Aorta
39	chr3:45850400-45857600	Weak transcription	Pancreas	Pancrea
40	chr3:45850600-45854400	Weak transcription	Thymus	Thymus
41	chr3:45850600-45859000	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr3:45850600-45868200	Weak transcription	Spleen	Spleen

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