Variant report

Variant	rs61729647
Chromosome Location	chr15:55930835-55930836
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	chr15:55808580..55811274-chr15:55928806..55931409,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11853621	1.00[EUR][1000 genomes]
rs1344957	1.00[EUR][1000 genomes]
rs16976437	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2196774	1.00[EUR][1000 genomes]
rs28680405	1.00[EUR][1000 genomes]
rs28702037	1.00[EUR][1000 genomes]
rs2917842	1.00[EUR][1000 genomes]
rs4774219	1.00[EUR][1000 genomes]
rs495381	1.00[EUR][1000 genomes]
rs55974808	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs562086	1.00[EUR][1000 genomes]
rs58886852	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59998724	1.00[EUR][1000 genomes]
rs60604532	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61254561	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61753409	1.00[EUR][1000 genomes]
rs62019993	1.00[EUR][1000 genomes]
rs628438	1.00[EUR][1000 genomes]
rs649709	1.00[EUR][1000 genomes]
rs691062	1.00[EUR][1000 genomes]
rs7167185	1.00[EUR][1000 genomes]
rs7167804	1.00[EUR][1000 genomes]
rs7170878	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7171076	1.00[EUR][1000 genomes]
rs7171082	1.00[EUR][1000 genomes]
rs7180984	1.00[EUR][1000 genomes]
rs73413205	1.00[EUR][1000 genomes]
rs73417334	1.00[AMR][1000 genomes]
rs73417345	1.00[AMR][1000 genomes]
rs74017524	1.00[EUR][1000 genomes]
rs8025181	1.00[EUR][1000 genomes]
rs8026616	1.00[EUR][1000 genomes]
rs8026815	1.00[EUR][1000 genomes]
rs8027015	1.00[EUR][1000 genomes]
rs8034383	1.00[EUR][1000 genomes]
rs8035790	1.00[EUR][1000 genomes]
rs8037279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8042087	1.00[EUR][1000 genomes]
rs8043147	1.00[EUR][1000 genomes]
rs9744860	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1040917	chr15:55562940-55943942	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv1041635	chr15:55658171-55943942	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv1049774	chr15:55759573-56044600	Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv569540	chr15:55866065-55950082	Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active 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	2 gene(s)	inside rSNPs	diseases
10	nsv457158	chr15:55930542-55982257	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv569541	chr15:55930542-55982257	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55902200-55942200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr15:55908600-55945000	Weak transcription	Left Ventricle	heart
3	chr15:55908800-55938800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:55911000-55931000	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr15:55911800-55977000	Weak transcription	Fetal Intestine Small	intestine
6	chr15:55912400-55944000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr15:55916000-55938200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:55918600-55931200	Weak transcription	Ovary	ovary
9	chr15:55920600-55931600	Weak transcription	Lung	lung
10	chr15:55920600-55933600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr15:55920600-55940000	Weak transcription	Psoas Muscle	Psoas
12	chr15:55920600-55953400	Weak transcription	HUVEC	blood vessel
13	chr15:55920800-55935200	Weak transcription	HSMMtube	muscle
14	chr15:55920800-55944600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr15:55920800-55987600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:55921000-55936200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr15:55921200-55941400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:55924000-55931800	Weak transcription	Brain Substantia Nigra	brain
19	chr15:55924400-55944800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:55924600-55934600	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr15:55924800-55934600	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr15:55927600-55931800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr15:55927600-55932800	Strong transcription	Hela-S3	cervix
24	chr15:55928600-55932800	Strong transcription	Stomach Smooth Muscle	stomach
25	chr15:55928600-55933400	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:55928800-55931000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr15:55928800-55931000	Weak transcription	Fetal Kidney	kidney
28	chr15:55928800-55932800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr15:55929000-55931200	Weak transcription	Fetal Muscle Leg	muscle
30	chr15:55929200-55932000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr15:55929400-55932800	Strong transcription	Placenta Amnion	Placenta Amnion
32	chr15:55929600-55931200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr15:55929600-55931200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr15:55929600-55931200	Weak transcription	Fetal Muscle Trunk	muscle
35	chr15:55929600-55931200	Weak transcription	Fetal Stomach	stomach
36	chr15:55929600-55933800	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr15:55929800-55931800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr15:55929800-55932800	Strong transcription	HUES6 Cell Line	embryonic stem cell
39	chr15:55930200-55932400	Strong transcription	Placenta	Placenta
40	chr15:55930200-55933400	Strong transcription	Fetal Intestine Large	intestine
41	chr15:55930200-55933400	Strong transcription	HepG2	liver
42	chr15:55930400-55932000	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:55930400-55933000	Weak transcription	Right Ventricle	heart
44	chr15:55930600-55932800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr15:55930800-55932600	Strong transcription	Fetal Lung	lung
46	chr15:55930800-55932800	Strong transcription	A549	lung

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