Variant report

Variant	rs28655373
Chromosome Location	chr3:100098191-100098192
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:100097843..100099760-chr3:100112170..100114759,2	MCF-7	breast:
2	chr3:100097916..100106101-chr3:100115627..100122137,10	K562	blood:
3	chr3:100098158..100099923-chr3:100101288..100104122,2	K562	blood:

Variant related genes	Relation type
ENSG00000154174	Chromatin interaction
ENSG00000206535	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10049208	1.00[EUR][1000 genomes]
rs10222473	1.00[EUR][1000 genomes]
rs13318574	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13326259	1.00[EUR][1000 genomes]
rs16842034	0.83[EUR][1000 genomes]
rs2289508	0.86[EUR][1000 genomes]
rs28631346	0.86[EUR][1000 genomes]
rs28668548	1.00[AFR][1000 genomes]
rs41272629	0.83[EUR][1000 genomes]
rs41272631	0.83[EUR][1000 genomes]
rs41272633	0.83[EUR][1000 genomes]
rs62636640	0.83[EUR][1000 genomes]
rs62636641	0.83[EUR][1000 genomes]
rs6768684	0.83[EUR][1000 genomes]
rs72943302	0.86[EUR][1000 genomes]
rs72945203	0.86[EUR][1000 genomes]
rs73860636	1.00[EUR][1000 genomes]
rs7637142	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7652596	0.83[EUR][1000 genomes]
rs9653957	0.86[EUR][1000 genomes]
rs9809742	1.00[EUR][1000 genomes]
rs9821113	0.86[EUR][1000 genomes]
rs9836840	1.00[AFR][1000 genomes]
rs9844356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9855368	1.00[EUR][1000 genomes]
rs9864923	0.86[EUR][1000 genomes]
rs9867520	1.00[EUR][1000 genomes]
rs9871870	1.00[EUR][1000 genomes]
rs9872028	1.00[EUR][1000 genomes]
rs9874663	1.00[AFR][1000 genomes]
rs9876856	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	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100054600-100102600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:100054800-100102200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:100071000-100103200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:100071000-100104400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:100071400-100105800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:100073800-100098200	Weak transcription	Gastric	stomach
7	chr3:100077000-100106000	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr3:100077200-100105600	Strong transcription	Duodenum Mucosa	Duodenum
9	chr3:100077600-100105200	Strong transcription	Skeletal Muscle Female	skeletal muscle
10	chr3:100078800-100103000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:100078800-100104400	Strong transcription	Fetal Intestine Large	intestine
12	chr3:100079400-100103200	Strong transcription	Osteobl	bone
13	chr3:100079400-100107600	Strong transcription	Dnd41	blood
14	chr3:100079600-100106200	Strong transcription	Primary B cells from peripheral blood	blood
15	chr3:100079800-100106200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr3:100080200-100104400	Strong transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:100080200-100106200	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr3:100080600-100105800	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:100081000-100104000	Weak transcription	Aorta	Aorta
20	chr3:100081000-100106000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:100081200-100104000	Strong transcription	HSMM	muscle
22	chr3:100081200-100104800	Strong transcription	Adipose Nuclei	Adipose
23	chr3:100081200-100105200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr3:100081200-100106000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr3:100081200-100106200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:100081200-100107000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:100081200-100107000	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr3:100081200-100107800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr3:100081400-100106200	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr3:100081800-100098400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr3:100081800-100104200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:100081800-100106200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:100082200-100107200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:100082400-100105800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr3:100083000-100106000	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr3:100083400-100105200	Strong transcription	Placenta	Placenta
37	chr3:100084800-100105600	Weak transcription	Fetal Heart	heart
38	chr3:100087000-100103600	Weak transcription	Psoas Muscle	Psoas
39	chr3:100087600-100103000	Weak transcription	Brain Angular Gyrus	brain
40	chr3:100087600-100114600	Weak transcription	Small Intestine	intestine
41	chr3:100088800-100098400	Strong transcription	Hela-S3	cervix
42	chr3:100089000-100104200	Strong transcription	Primary T cells from cord blood	blood
43	chr3:100089000-100104600	Strong transcription	A549	lung
44	chr3:100089000-100104800	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr3:100089000-100105800	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr3:100089000-100106000	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr3:100089000-100106000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr3:100089200-100103000	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr3:100089200-100104400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr3:100089200-100107200	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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