Variant report

Variant	rs62277075
Chromosome Location	chr3:156468112-156468113
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	chr3:156467361..156469859-chr3:156528012..156530054,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SSR3-3	chr3:156465135-156468203	ENSG00000240875
2	lnc-SSR3-3	chr3:156467790-156468203	ENSG00000240875
3	lnc-SSR3-3	chr3:156464967-156468203	NONHSAT092863
4	lnc-SSR3-3	chr3:156465132-156468203	NR_038387

Variant related genes	Relation type
ENSG00000230457	Chromatin interaction

Extended variants
information (count: 189 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:187)

rs_ID	r²[population]
rs17380639	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17381024	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17381930	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17382208	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17440227	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17440656	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17440944	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17442011	1.00[AMR][1000 genomes]
rs17442045	1.00[AMR][1000 genomes]
rs62273860	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273861	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273862	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273892	1.00[AMR][1000 genomes]
rs62273893	1.00[AMR][1000 genomes]
rs62273895	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273896	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273897	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273898	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62273899	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273900	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273901	0.89[AMR][1000 genomes]
rs62273902	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273904	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273905	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273906	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273907	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273908	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273909	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273910	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273912	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273913	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273914	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273915	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273916	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273917	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273918	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273919	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273920	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62273921	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273922	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273955	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273956	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273958	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62273959	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62274040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62274041	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62274042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62274046	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62274047	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275160	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275163	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275164	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275165	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62275166	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275170	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62275171	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275173	1.00[AMR][1000 genomes]
rs62275174	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275175	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275176	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275177	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275178	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275179	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275180	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275181	1.00[AMR][1000 genomes]
rs62275182	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275185	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275186	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275187	1.00[AMR][1000 genomes]
rs62275189	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275190	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275191	1.00[AMR][1000 genomes]
rs62275238	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275241	1.00[AMR][1000 genomes]
rs62275243	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275244	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275245	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275246	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275247	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275248	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275249	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275250	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275251	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275252	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275253	1.00[AMR][1000 genomes]
rs62275255	1.00[AMR][1000 genomes]
rs62275256	1.00[AMR][1000 genomes]
rs62275257	1.00[AMR][1000 genomes]
rs62275258	1.00[AMR][1000 genomes]
rs62275259	1.00[AMR][1000 genomes]
rs62275574	1.00[AMR][1000 genomes]
rs62275575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62275576	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62275577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62275579	0.87[AMR][1000 genomes]
rs62275580	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275646	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275647	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62275651	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs62275653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62275760	1.00[AMR][1000 genomes]
rs62275761	1.00[AMR][1000 genomes]
rs62275762	1.00[AMR][1000 genomes]
rs62275764	1.00[AMR][1000 genomes]
rs62275766	1.00[AMR][1000 genomes]
rs62275767	1.00[AMR][1000 genomes]
rs62275795	1.00[AMR][1000 genomes]
rs62275796	1.00[AMR][1000 genomes]
rs62275797	1.00[AMR][1000 genomes]
rs62275798	1.00[AMR][1000 genomes]
rs62275799	1.00[AMR][1000 genomes]
rs62275800	1.00[AMR][1000 genomes]
rs62275801	1.00[AMR][1000 genomes]
rs62275804	1.00[AMR][1000 genomes]
rs62275805	1.00[AMR][1000 genomes]
rs62275806	1.00[AMR][1000 genomes]
rs62275808	1.00[AMR][1000 genomes]
rs62275809	1.00[AMR][1000 genomes]
rs62275810	1.00[AMR][1000 genomes]
rs62275811	1.00[AMR][1000 genomes]
rs62275812	1.00[AMR][1000 genomes]
rs62275813	1.00[AMR][1000 genomes]
rs62275829	1.00[AMR][1000 genomes]
rs62275830	1.00[AMR][1000 genomes]
rs62276613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276616	1.00[AMR][1000 genomes]
rs62276618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62276625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277074	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277076	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277077	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277078	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277079	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277080	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277081	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277084	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62277085	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277086	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277087	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277088	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277089	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277090	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277091	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277092	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277093	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277096	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277097	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277098	1.00[AMR][1000 genomes]
rs62277099	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277140	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277141	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277142	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277143	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277144	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277145	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277146	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277147	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277148	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62277149	1.00[AMR][1000 genomes]
rs62277150	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277153	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277155	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277156	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277157	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277158	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62277396	1.00[AMR][1000 genomes]
rs62277398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62278060	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62278061	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62278062	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62278064	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62278065	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62278066	0.83[EUR][1000 genomes]
rs7651446	1.00[EUR][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	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv877685	chr3:156444383-156611676	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156460000-156468400	Weak transcription	Pancreas	Pancrea
2	chr3:156466200-156468200	Enhancers	HSMM	muscle
3	chr3:156466200-156470200	Enhancers	Fetal Muscle Leg	muscle
4	chr3:156466600-156469600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:156466800-156468200	Enhancers	HepG2	liver
6	chr3:156466800-156468400	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr3:156466800-156468400	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr3:156466800-156468400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:156466800-156469000	Enhancers	H1 Cell Line	embryonic stem cell
10	chr3:156466800-156469000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:156466800-156469000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr3:156466800-156469000	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr3:156466800-156469400	Enhancers	Brain Cingulate Gyrus	brain
14	chr3:156466800-156469600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr3:156466800-156469600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:156466800-156469600	Enhancers	Fetal Heart	heart
17	chr3:156466800-156469800	Enhancers	Fetal Kidney	kidney
18	chr3:156466800-156469800	Enhancers	Fetal Lung	lung
19	chr3:156466800-156471200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:156467000-156468200	Enhancers	HMEC	breast
21	chr3:156467000-156468400	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr3:156467000-156468400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:156467000-156468400	Enhancers	NHLF	lung
24	chr3:156467000-156468600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr3:156467000-156469000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr3:156467000-156469200	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr3:156467000-156469400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr3:156467000-156469400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:156467000-156469600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:156467000-156469600	Enhancers	Fetal Muscle Trunk	muscle
31	chr3:156467000-156469800	Enhancers	Brain Substantia Nigra	brain
32	chr3:156467000-156470200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr3:156467000-156470200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:156467000-156470200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:156467200-156468200	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr3:156467200-156468200	Weak transcription	Lung	lung
37	chr3:156467200-156468200	Enhancers	NH-A	brain
38	chr3:156467200-156468400	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr3:156467200-156468400	Enhancers	Osteobl	bone
40	chr3:156467200-156468600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr3:156467200-156468600	Enhancers	NHDF-Ad	bronchial
42	chr3:156467200-156469400	Enhancers	H9 Cell Line	embryonic stem cell
43	chr3:156467400-156468200	Enhancers	Fetal Intestine Large	intestine
44	chr3:156467400-156469200	Enhancers	Brain Hippocampus Middle	brain
45	chr3:156467600-156468200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:156467600-156468400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr3:156467600-156468400	Weak transcription	Fetal Intestine Small	intestine
48	chr3:156467600-156468600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr3:156467600-156470200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr3:156467800-156468200	Enhancers	NHEK	skin

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