Variant report

Variant	rs34700788
Chromosome Location	chr3:100035670-100035671
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:100035534..100037682-chr3:100119496..100121597,2	MCF-7	breast:
2	chr3:100035487..100036085-chr3:100309070..100309718,3	MCF-7	breast:
3	chr3:100034880..100036007-chr3:100308930..100309869,3	MCF-7	breast:
4	chr3:100035459..100037890-chr3:100081893..100083767,2	MCF-7	breast:
5	chr3:100033941..100036861-chr3:100119084..100121565,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000206535	Chromatin interaction
ENSG00000154174	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10511178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10936147	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11709240	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11709563	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11710065	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1228183	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12629226	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12631115	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12633745	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12633821	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13072367	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13074365	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13075241	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13078920	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13079423	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13079881	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13098188	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16842060	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16847139	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1979540	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2289509	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs277657	0.83[ASN][1000 genomes]
rs34314126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34384409	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34869521	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35141973	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35594119	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3772694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3772696	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3772697	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3772701	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3806616	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4263320	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4928115	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4928121	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4928122	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4928163	0.94[EUR][1000 genomes]
rs4928165	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4928168	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59233020	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61095099	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66757043	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67403774	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6762794	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6763680	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6764125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6764957	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6765158	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6772774	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6774538	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6787142	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6787301	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6791887	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6794668	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6808469	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs68094410	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71313591	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7611566	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7615300	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7625101	0.94[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	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active 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	17 gene(s)	inside rSNPs	diseases
3	nsv869690	chr3:99984442-100054949	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99980600-100037200	Weak transcription	Spleen	Spleen
2	chr3:99980600-100053200	Weak transcription	Gastric	stomach
3	chr3:99994400-100040800	Weak transcription	Esophagus	oesophagus
4	chr3:99996000-100052800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:99996000-100053000	Weak transcription	Small Intestine	intestine
6	chr3:100007000-100045000	Weak transcription	Lung	lung
7	chr3:100007800-100035800	Weak transcription	A549	lung
8	chr3:100008600-100053000	Weak transcription	Aorta	Aorta
9	chr3:100009200-100045000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr3:100014600-100042200	Weak transcription	Fetal Brain Male	brain
11	chr3:100015400-100053200	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr3:100018800-100035800	Weak transcription	Colon Smooth Muscle	Colon
13	chr3:100019000-100043200	Weak transcription	Brain Angular Gyrus	brain
14	chr3:100019200-100038200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:100019600-100053000	Weak transcription	Colonic Mucosa	Colon
16	chr3:100020000-100038600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr3:100020600-100053000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr3:100020600-100053000	Weak transcription	Hela-S3	cervix
19	chr3:100021200-100036000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr3:100021800-100052800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:100021800-100053000	Weak transcription	Psoas Muscle	Psoas
22	chr3:100022000-100047600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr3:100022000-100052800	Weak transcription	Pancreas	Pancrea
24	chr3:100025800-100038800	Weak transcription	Brain Cingulate Gyrus	brain
25	chr3:100025800-100053000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:100025800-100053000	Weak transcription	Right Ventricle	heart
27	chr3:100026000-100038600	Weak transcription	HMEC	breast
28	chr3:100026000-100052600	Weak transcription	Brain Hippocampus Middle	brain
29	chr3:100026000-100052800	Weak transcription	Thymus	Thymus
30	chr3:100026200-100038600	Weak transcription	Primary hematopoietic stem cells	blood
31	chr3:100026400-100038400	Weak transcription	Ovary	ovary
32	chr3:100026400-100038600	Weak transcription	Brain Germinal Matrix	brain
33	chr3:100026400-100038600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr3:100026400-100038800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr3:100026400-100038800	Weak transcription	K562	blood
36	chr3:100026400-100045600	Weak transcription	HSMMtube	muscle
37	chr3:100026400-100052800	Weak transcription	NHEK	skin
38	chr3:100026400-100053000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:100026600-100048600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr3:100026600-100052800	Weak transcription	Stomach Smooth Muscle	stomach
41	chr3:100029200-100038200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr3:100029200-100038400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:100029400-100037600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:100029400-100038400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr3:100029400-100038600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr3:100029400-100041200	Weak transcription	Fetal Kidney	kidney
47	chr3:100029600-100053000	Weak transcription	Brain Substantia Nigra	brain
48	chr3:100029800-100035800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr3:100029800-100038600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr3:100029800-100038600	Weak transcription	Brain Anterior Caudate	brain

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