Variant report

Variant	rs2015189
Chromosome Location	chr2:33612842-33612843
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	chr2:33612532..33615495-chr2:33620487..33623210,2	MCF-7	breast:
2	chr2:33612365..33616545-chr2:33619739..33622909,3	K562	blood:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1017677	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.80[LWK][hapmap];0.94[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10198960	0.80[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap]
rs10495787	0.96[CEU][hapmap];0.84[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11885449	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.80[TSI][hapmap];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11891105	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11899010	0.84[JPT][hapmap]
rs13009128	0.83[ASN][1000 genomes]
rs13385066	0.88[ASW][hapmap];0.80[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13424241	0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17012911	0.84[JPT][hapmap]
rs17012917	0.94[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs17012922	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1869449	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.82[JPT][hapmap];0.95[LWK][hapmap];0.88[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2290426	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs2305502	0.88[JPT][hapmap]
rs28414403	0.81[ASN][1000 genomes]
rs28437398	0.81[ASN][1000 genomes]
rs28709139	0.82[ASN][1000 genomes]
rs3769549	0.83[CHB][hapmap];0.88[JPT][hapmap]
rs3769550	0.89[CHB][hapmap];0.88[JPT][hapmap]
rs3820909	0.82[ASN][1000 genomes]
rs58804388	0.94[ASN][1000 genomes]
rs6543707	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs6711211	0.80[CEU][hapmap];0.89[CHB][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6719824	0.86[CHD][hapmap];0.84[JPT][hapmap];0.80[ASN][1000 genomes]
rs7566302	0.80[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005435	chr2:33136117-33747159	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv535624	chr2:33136117-33747159	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1012967	chr2:33533340-33638312	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv535627	chr2:33533340-33638312	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv524337	chr2:33612842-33614187	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33588400-33624400	Weak transcription	Gastric	stomach
2	chr2:33589200-33623000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr2:33590600-33615800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr2:33590600-33624800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr2:33591400-33616000	Weak transcription	Colon Smooth Muscle	Colon
6	chr2:33592000-33624800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr2:33596200-33614400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:33596400-33613800	Weak transcription	Liver	Liver
9	chr2:33597200-33622200	Weak transcription	Fetal Muscle Leg	muscle
10	chr2:33602200-33613600	Weak transcription	NHLF	lung
11	chr2:33604200-33613000	Weak transcription	NH-A	brain
12	chr2:33604200-33614000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr2:33604200-33616600	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr2:33604200-33624800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr2:33604600-33623600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr2:33604800-33614000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr2:33604800-33616200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr2:33604800-33616800	Weak transcription	Brain Anterior Caudate	brain
19	chr2:33605400-33616000	Weak transcription	Brain Hippocampus Middle	brain
20	chr2:33607600-33616600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr2:33608200-33614200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr2:33609400-33614200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr2:33609800-33615000	Weak transcription	NHDF-Ad	bronchial
24	chr2:33609800-33630200	Weak transcription	Fetal Heart	heart
25	chr2:33610000-33622200	Weak transcription	Left Ventricle	heart
26	chr2:33610200-33615000	Weak transcription	Psoas Muscle	Psoas
27	chr2:33610400-33616200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr2:33610600-33614400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr2:33611200-33615600	Strong transcription	Osteobl	bone
30	chr2:33611400-33616200	Weak transcription	Fetal Lung	lung
31	chr2:33611800-33613400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr2:33612200-33614000	Enhancers	Stomach Smooth Muscle	stomach
33	chr2:33612400-33613200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr2:33612400-33615000	Genic enhancers	Fetal Stomach	stomach
35	chr2:33612600-33613000	Enhancers	H9 Cell Line	embryonic stem cell
36	chr2:33612600-33613000	Strong transcription	Right Ventricle	heart
37	chr2:33612600-33613400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr2:33612600-33613400	Enhancers	Aorta	Aorta
39	chr2:33612600-33613600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr2:33612600-33613600	Enhancers	Ovary	ovary
41	chr2:33612800-33613000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr2:33612800-33613400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr2:33612800-33621000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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