Variant report

Variant	rs347909
Chromosome Location	chr1:120184212-120184213
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	chr1:120177198..120184772-chr1:120188907..120196947,14	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143067	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs347904	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs376910	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838986	0.88[EUR][1000 genomes]
rs838987	0.88[EUR][1000 genomes]
rs838989	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932014	chr1:119476480-120471049	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
2	nsv1000391	chr1:119837978-120287056	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv535077	chr1:119837978-120287056	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv1000939	chr1:119983342-120471049	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	esv2757749	chr1:120016696-120214577	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	esv2758964	chr1:120016696-120214577	Enhancers ZNF genes & repeats Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:120163600-120188400	Weak transcription	Hela-S3	cervix
2	chr1:120165800-120189600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:120168400-120187000	Weak transcription	K562	blood
4	chr1:120169400-120184400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:120174800-120186000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr1:120175200-120188200	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr1:120175400-120186000	Weak transcription	Aorta	Aorta
8	chr1:120175400-120188000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr1:120175400-120188200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr1:120175400-120189200	Weak transcription	Fetal Muscle Trunk	muscle
11	chr1:120175600-120187800	Weak transcription	HMEC	breast
12	chr1:120175600-120188200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:120175800-120188000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr1:120176000-120188400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr1:120176200-120188200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:120176800-120184400	Enhancers	Fetal Lung	lung
17	chr1:120176800-120186000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr1:120177000-120188200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr1:120177000-120188400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr1:120177000-120189000	Weak transcription	Fetal Muscle Leg	muscle
21	chr1:120179000-120188400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr1:120179000-120188400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr1:120179400-120188400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:120179600-120187800	Weak transcription	NHEK	skin
25	chr1:120179600-120188000	Weak transcription	NH-A	brain
26	chr1:120179800-120185800	Weak transcription	Osteobl	bone
27	chr1:120180000-120188400	Weak transcription	Fetal Kidney	kidney
28	chr1:120180200-120188400	Weak transcription	Fetal Intestine Small	intestine
29	chr1:120180200-120188600	Weak transcription	Fetal Intestine Large	intestine
30	chr1:120180200-120189000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr1:120180200-120189200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr1:120180400-120187200	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr1:120180400-120188000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr1:120181000-120189000	Weak transcription	Fetal Brain Female	brain
35	chr1:120181600-120184600	Weak transcription	HUVEC	blood vessel
36	chr1:120181600-120186200	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr1:120181600-120188600	Weak transcription	Lung	lung
38	chr1:120181600-120189200	Weak transcription	Pancreas	Pancrea
39	chr1:120181800-120189000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr1:120182000-120188600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr1:120182200-120184600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr1:120182200-120185800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr1:120182200-120188600	Weak transcription	Gastric	stomach
44	chr1:120182400-120185800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr1:120182400-120188000	Weak transcription	Adipose Nuclei	Adipose
46	chr1:120182400-120188200	Weak transcription	Placenta	Placenta
47	chr1:120182400-120188400	Weak transcription	Fetal Stomach	stomach
48	chr1:120182600-120186200	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr1:120182800-120184400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr1:120183400-120188000	Weak transcription	Left Ventricle	heart

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