Variant report

Variant	rs62412950
Chromosome Location	chr6:64392134-64392135
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	chr6:64388160..64391006-chr6:64391117..64393015,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118482	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10455430	0.83[ASN][1000 genomes]
rs10485358	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1057530	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10755432	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10943975	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1212828	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12190601	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12198142	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12205302	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12205984	0.80[ASN][1000 genomes]
rs1575054	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1884117	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1889096	0.81[ASN][1000 genomes]
rs319920	0.88[ASN][1000 genomes]
rs319923	0.88[ASN][1000 genomes]
rs319924	0.88[ASN][1000 genomes]
rs319925	0.88[ASN][1000 genomes]
rs450855	0.80[ASN][1000 genomes]
rs4562122	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4710437	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4710446	0.80[ASN][1000 genomes]
rs504776	0.81[ASN][1000 genomes]
rs67875483	0.88[ASN][1000 genomes]
rs6904818	0.85[ASN][1000 genomes]
rs6911292	0.81[ASN][1000 genomes]
rs6921058	0.80[ASN][1000 genomes]
rs6921180	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6932538	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7767473	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[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	nsv830674	chr6:64355412-64535801	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1022376	chr6:64386826-64445195	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64347000-64422400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:64351200-64405000	Weak transcription	Thymus	Thymus
3	chr6:64354000-64421200	Weak transcription	Gastric	stomach
4	chr6:64357800-64393400	Weak transcription	Placenta	Placenta
5	chr6:64365800-64409400	Weak transcription	Fetal Stomach	stomach
6	chr6:64370800-64395000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:64370800-64413400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:64371000-64394200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:64371000-64409000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:64373800-64394200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:64373800-64394600	Weak transcription	HSMMtube	muscle
12	chr6:64373800-64394800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:64374200-64393400	Weak transcription	HSMM	muscle
14	chr6:64374200-64394000	Weak transcription	NH-A	brain
15	chr6:64374200-64394200	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:64374200-64405800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:64374200-64414600	Weak transcription	HMEC	breast
18	chr6:64375600-64409000	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr6:64377000-64394000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr6:64381200-64394200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr6:64381400-64405200	Weak transcription	Brain Germinal Matrix	brain
22	chr6:64383400-64394000	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:64383800-64394000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:64384600-64394000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr6:64384600-64414400	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr6:64385000-64394000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:64386600-64394000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:64386800-64394000	Weak transcription	Left Ventricle	heart
29	chr6:64386800-64394000	Weak transcription	HUVEC	blood vessel
30	chr6:64386800-64397000	Weak transcription	Pancreas	Pancrea
31	chr6:64387000-64394200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr6:64387200-64410200	Weak transcription	Colonic Mucosa	Colon
33	chr6:64387200-64421000	Weak transcription	Aorta	Aorta
34	chr6:64387400-64393400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:64387400-64394000	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr6:64387400-64394000	Weak transcription	Ovary	ovary
37	chr6:64387400-64394000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr6:64387400-64394000	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr6:64387400-64394200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr6:64387400-64394200	Weak transcription	Brain Angular Gyrus	brain
41	chr6:64387400-64394600	Weak transcription	Brain Anterior Caudate	brain
42	chr6:64387400-64395400	Weak transcription	Small Intestine	intestine
43	chr6:64387400-64419400	Weak transcription	Fetal Heart	heart
44	chr6:64387600-64393000	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:64387600-64393400	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr6:64387600-64394000	Weak transcription	NHLF	lung
47	chr6:64387600-64394200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr6:64387600-64394200	Weak transcription	Brain Hippocampus Middle	brain
49	chr6:64387600-64421000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr6:64387600-64423400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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