Variant report

Variant	rs6801796
Chromosome Location	chr3:150329245-150329246
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150319883..150326696-chr3:150327224..150333205,16	MCF-7	breast:
2	chr3:150328265..150331845-chr3:150479203..150481571,3	K562	blood:
3	chr3:150319130..150324790-chr3:150327939..150333389,12	K562	blood:
4	chr3:150320056..150325236-chr3:150328045..150333634,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000120742	Chromatin interaction
ENSG00000244265	Chromatin interaction
ENSG00000181788	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1133494	0.83[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs13097283	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1464517	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1915942	0.81[AFR][1000 genomes]
rs1915943	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2049229	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2204112	0.87[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs2868947	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6779448	0.84[AFR][1000 genomes]
rs6798173	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7433606	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7638500	0.83[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs7642917	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9809820	0.88[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9819287	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs9836797	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs9842446	0.85[EUR][1000 genomes]
rs9865177	0.81[AFR][1000 genomes]
rs9874800	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150322200-150329400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:150322200-150336400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:150322200-150347000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:150322400-150336200	Weak transcription	Fetal Kidney	kidney
5	chr3:150322400-150344000	Weak transcription	HSMMtube	muscle
6	chr3:150322400-150350800	Weak transcription	Colonic Mucosa	Colon
7	chr3:150322400-150353000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:150322600-150329400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:150322600-150329400	Weak transcription	Fetal Stomach	stomach
10	chr3:150322600-150329600	Weak transcription	Fetal Intestine Large	intestine
11	chr3:150322600-150329600	Weak transcription	Placenta	Placenta
12	chr3:150322800-150329600	Weak transcription	Fetal Muscle Trunk	muscle
13	chr3:150322800-150329600	Weak transcription	Fetal Muscle Leg	muscle
14	chr3:150322800-150341200	Weak transcription	HSMM	muscle
15	chr3:150323000-150341200	Weak transcription	Adipose Nuclei	Adipose
16	chr3:150323000-150343800	Weak transcription	HMEC	breast
17	chr3:150323000-150348200	Weak transcription	Fetal Brain Male	brain
18	chr3:150323000-150348200	Weak transcription	Fetal Lung	lung
19	chr3:150323200-150330200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:150323600-150334600	Weak transcription	Brain Germinal Matrix	brain
21	chr3:150323800-150330200	Weak transcription	HUVEC	blood vessel
22	chr3:150323800-150341000	Weak transcription	A549	lung
23	chr3:150324000-150330800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr3:150324000-150341600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr3:150324200-150329400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:150324200-150329400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr3:150324200-150330800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:150324200-150336000	Weak transcription	Osteobl	bone
29	chr3:150324200-150342400	Weak transcription	NHDF-Ad	bronchial
30	chr3:150324400-150329400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr3:150324600-150339000	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr3:150324800-150329400	Weak transcription	Thymus	Thymus
33	chr3:150325400-150329400	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr3:150325400-150330800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr3:150325600-150329400	Enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr3:150325600-150329400	Weak transcription	Ovary	ovary
37	chr3:150325600-150330200	Weak transcription	NH-A	brain
38	chr3:150325600-150334600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:150325600-150336800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr3:150325600-150339400	Weak transcription	Hela-S3	cervix
41	chr3:150325600-150342400	Weak transcription	NHLF	lung
42	chr3:150325600-150342600	Weak transcription	Brain Substantia Nigra	brain
43	chr3:150325600-150348400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr3:150325800-150329400	Weak transcription	Esophagus	oesophagus
45	chr3:150325800-150329400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr3:150325800-150329400	Weak transcription	Spleen	Spleen
47	chr3:150325800-150329600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr3:150325800-150329600	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr3:150325800-150329600	Weak transcription	Fetal Intestine Small	intestine
50	chr3:150325800-150336600	Weak transcription	Duodenum Mucosa	Duodenum

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