Variant report

Variant	rs34878380
Chromosome Location	chr10:50293059-50293060
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:50287416..50289075-chr10:50291865..50294530,2	MCF-7	breast:

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs12244666	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12244748	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12253426	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12255090	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12256777	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12257242	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12261297	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12765281	0.88[EUR][1000 genomes]
rs12769361	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12774293	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12776460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17011744	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17011746	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17011757	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17700872	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17701186	0.88[EUR][1000 genomes]
rs17773851	0.88[EUR][1000 genomes]
rs2003044	0.81[EUR][1000 genomes]
rs2137911	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2137912	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2137914	0.94[ASN][1000 genomes]
rs2246673	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2246937	0.94[ASN][1000 genomes]
rs2264846	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2264847	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2490838	0.85[EUR][1000 genomes]
rs2725179	0.85[EUR][1000 genomes]
rs2725181	0.84[EUR][1000 genomes]
rs2725184	0.86[EUR][1000 genomes]
rs2725185	0.86[EUR][1000 genomes]
rs2725190	0.85[EUR][1000 genomes]
rs2804937	0.84[EUR][1000 genomes]
rs34062275	0.87[EUR][1000 genomes]
rs34110351	0.88[EUR][1000 genomes]
rs34289781	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34364659	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34467986	0.88[EUR][1000 genomes]
rs34574986	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34640094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35341824	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35462783	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35905744	0.88[EUR][1000 genomes]
rs35922675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3924984	0.95[ASN][1000 genomes]
rs3924985	0.93[ASN][1000 genomes]
rs4073138	0.86[EUR][1000 genomes]
rs4073139	0.87[EUR][1000 genomes]
rs4364979	0.86[EUR][1000 genomes]
rs4400713	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4402204	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4445564	0.96[EUR][1000 genomes]
rs4468264	0.97[ASN][1000 genomes]
rs4481947	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4497319	0.97[ASN][1000 genomes]
rs4508127	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4550151	0.97[ASN][1000 genomes]
rs4600129	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4644582	0.86[EUR][1000 genomes]
rs55947405	0.86[EUR][1000 genomes]
rs56291725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58154726	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58893558	0.86[EUR][1000 genomes]
rs67269950	0.88[EUR][1000 genomes]
rs68065270	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7070387	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7073208	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7081243	0.88[EUR][1000 genomes]
rs7084112	0.99[ASN][1000 genomes]
rs7085823	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7088718	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7098134	0.99[ASN][1000 genomes]
rs7100655	0.87[EUR][1000 genomes]
rs72785015	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7896344	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7904272	0.95[ASN][1000 genomes]
rs7907959	0.97[ASN][1000 genomes]
rs9804403	0.93[EUR][1000 genomes];0.95[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	nsv831866	chr10:50165180-50335276	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
2	esv2761593	chr10:50276812-50336129	Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50272600-50294200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr10:50283200-50298200	Weak transcription	Spleen	Spleen
3	chr10:50288200-50293200	Enhancers	Right Ventricle	heart
4	chr10:50288400-50293600	Enhancers	HSMMtube	muscle
5	chr10:50289000-50294200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr10:50289200-50294400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr10:50289400-50294200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr10:50289600-50298800	Weak transcription	Fetal Thymus	thymus
9	chr10:50290200-50298200	Weak transcription	Colonic Mucosa	Colon
10	chr10:50290400-50295000	Weak transcription	K562	blood
11	chr10:50290800-50315400	Weak transcription	Fetal Intestine Small	intestine
12	chr10:50291000-50293400	Genic enhancers	Fetal Muscle Leg	muscle
13	chr10:50291200-50297200	Weak transcription	Lung	lung
14	chr10:50291400-50293400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr10:50291400-50293800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:50291600-50293800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr10:50291600-50294200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr10:50291800-50293200	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr10:50291800-50299600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr10:50292000-50293400	Genic enhancers	Fetal Muscle Trunk	muscle
21	chr10:50292200-50293200	Weak transcription	Adipose Nuclei	Adipose
22	chr10:50292200-50294200	Weak transcription	Colon Smooth Muscle	Colon
23	chr10:50292200-50294400	Weak transcription	Brain Angular Gyrus	brain
24	chr10:50292200-50294400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr10:50292200-50296400	Weak transcription	Right Atrium	heart
26	chr10:50292200-50296600	Weak transcription	Stomach Smooth Muscle	stomach
27	chr10:50292200-50302600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:50292200-50311800	Weak transcription	Aorta	Aorta
29	chr10:50292400-50294200	Weak transcription	Brain Hippocampus Middle	brain
30	chr10:50292600-50294000	Weak transcription	Brain Anterior Caudate	brain
31	chr10:50292800-50293400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr10:50292800-50293400	Strong transcription	Fetal Intestine Large	intestine
33	chr10:50292800-50293400	Strong transcription	Fetal Stomach	stomach
34	chr10:50292800-50293400	Genic enhancers	Ovary	ovary
35	chr10:50293000-50293200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr10:50293000-50293400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr10:50293000-50293600	Strong transcription	Left Ventricle	heart
38	chr10:50293000-50294200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr10:50293000-50294400	Weak transcription	Fetal Lung	lung

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