Variant report

Variant	rs73854390
Chromosome Location	chr3:105442219-105442220
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	chr3:105435086..105438281-chr3:105439598..105442695,3	MCF-7	breast:
2	chr3:105438428..105441312-chr3:105441392..105443154,2	K562	blood:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs55857799	1.00[AMR][1000 genomes]
rs55949717	1.00[AMR][1000 genomes]
rs56004331	1.00[AMR][1000 genomes]
rs56072602	1.00[AMR][1000 genomes]
rs56249671	1.00[AMR][1000 genomes]
rs56256418	1.00[AMR][1000 genomes]
rs56696279	1.00[AMR][1000 genomes]
rs57184464	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58512451	1.00[AMR][1000 genomes]
rs58846261	1.00[AMR][1000 genomes]
rs58991769	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59294274	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59347770	1.00[AMR][1000 genomes]
rs59577696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59924993	1.00[AMR][1000 genomes]
rs61115724	1.00[AMR][1000 genomes]
rs61230240	1.00[AMR][1000 genomes]
rs61452551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854347	1.00[AMR][1000 genomes]
rs73854349	1.00[AMR][1000 genomes]
rs73854350	1.00[AMR][1000 genomes]
rs73854352	1.00[AMR][1000 genomes]
rs73854353	1.00[AMR][1000 genomes]
rs73854354	1.00[AMR][1000 genomes]
rs73854355	1.00[AMR][1000 genomes]
rs73854356	1.00[AMR][1000 genomes]
rs73854359	1.00[AMR][1000 genomes]
rs73854361	1.00[AMR][1000 genomes]
rs73854378	1.00[AMR][1000 genomes]
rs73854385	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854392	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854398	1.00[AFR][1000 genomes]
rs73854402	1.00[AMR][1000 genomes]
rs73854884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854892	1.00[AMR][1000 genomes]
rs73855350	1.00[AMR][1000 genomes]
rs73855352	1.00[AMR][1000 genomes]
rs73855362	1.00[AMR][1000 genomes]
rs73855363	1.00[AMR][1000 genomes]
rs73855365	1.00[AMR][1000 genomes]
rs73855366	1.00[AMR][1000 genomes]
rs73857223	1.00[AMR][1000 genomes]
rs73857224	1.00[AMR][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	nsv877306	chr3:105372196-105495841	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv877307	chr3:105373836-105465189	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv591242	chr3:105373836-105470134	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv877308	chr3:105373836-105495841	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv877310	chr3:105409321-105495841	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv591243	chr3:105438320-105470134	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv591244	chr3:105438320-105495841	ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv591245	chr3:105438806-105469882	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv591246	chr3:105439522-105504129	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105375800-105464600	Weak transcription	Small Intestine	intestine
2	chr3:105378000-105455400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:105389200-105467200	Weak transcription	Stomach Mucosa	stomach
4	chr3:105407800-105457800	Weak transcription	HepG2	liver
5	chr3:105417400-105443400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:105420800-105445600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:105421200-105465400	Weak transcription	Colonic Mucosa	Colon
8	chr3:105421400-105443000	Weak transcription	Fetal Intestine Small	intestine
9	chr3:105425400-105442400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:105432800-105463800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr3:105433600-105465600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr3:105433800-105445400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:105434400-105446600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr3:105434800-105463800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:105438800-105442400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:105438800-105464000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr3:105438800-105465400	Weak transcription	Fetal Heart	heart
18	chr3:105439000-105442400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr3:105439000-105442800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:105439000-105445400	Weak transcription	Fetal Lung	lung
21	chr3:105439000-105446200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:105439000-105447200	Weak transcription	HSMM	muscle
23	chr3:105439000-105450600	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr3:105439000-105457800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr3:105439000-105461600	Weak transcription	Dnd41	blood
26	chr3:105439000-105464000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr3:105439000-105464200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr3:105439000-105465400	Weak transcription	Colon Smooth Muscle	Colon
29	chr3:105439000-105465800	Weak transcription	NHLF	lung
30	chr3:105439000-105466200	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr3:105439000-105466600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr3:105439000-105471200	Weak transcription	Fetal Thymus	thymus
33	chr3:105439000-105471400	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr3:105439000-105471400	Weak transcription	HMEC	breast
35	chr3:105439000-105471600	Weak transcription	Fetal Brain Male	brain
36	chr3:105439000-105475800	Weak transcription	Esophagus	oesophagus
37	chr3:105439000-105477400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr3:105439000-105477400	Weak transcription	Lung	lung
39	chr3:105439000-105477400	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr3:105439200-105443200	Weak transcription	Brain Germinal Matrix	brain
41	chr3:105439200-105444400	Weak transcription	NH-A	brain
42	chr3:105439200-105444800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr3:105439200-105444800	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr3:105439200-105444800	Weak transcription	HSMMtube	muscle
45	chr3:105439200-105445400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr3:105439200-105445400	Weak transcription	Gastric	stomach
47	chr3:105439200-105445600	Weak transcription	Placenta	Placenta
48	chr3:105439200-105446200	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr3:105439200-105446200	Weak transcription	Fetal Muscle Leg	muscle
50	chr3:105439200-105447200	Weak transcription	Rectal Mucosa Donor 29	rectum

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