Variant report

Variant	rs3788992
Chromosome Location	chr6:25599220-25599221
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:25278543..25280761-chr6:25597969..25600391,2	MCF-7	breast:
2	chr6:25597764..25600323-chr6:25602080..25604098,2	K562	blood:
3	chr6:25599158..25601193-chr6:25604534..25607048,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000079691	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs13192159	0.81[AMR][1000 genomes]
rs1406924	0.81[AMR][1000 genomes]
rs2072845	0.80[AMR][1000 genomes]
rs2272824	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3747526	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3804120	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4588684	0.84[AMR][1000 genomes]
rs6935799	0.81[AMR][1000 genomes]
rs7739227	0.91[AMR][1000 genomes]
rs7767930	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9295665	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9356983	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9393650	0.93[AMR][1000 genomes];0.83[ASN][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	nsv883488	chr6:25592489-25731691	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25516800-25606400	Weak transcription	Lung	lung
2	chr6:25541600-25612000	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:25547200-25600600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:25556200-25618000	Weak transcription	Primary B cells from cord blood	blood
5	chr6:25572000-25622200	Weak transcription	HSMMtube	muscle
6	chr6:25577200-25603400	Weak transcription	Fetal Brain Female	brain
7	chr6:25577200-25624800	Weak transcription	Adipose Nuclei	Adipose
8	chr6:25579200-25604600	Weak transcription	Fetal Brain Male	brain
9	chr6:25580600-25608600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:25580600-25610200	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:25580800-25599600	Weak transcription	Small Intestine	intestine
12	chr6:25581200-25622800	Weak transcription	Colonic Mucosa	Colon
13	chr6:25582000-25611400	Weak transcription	Brain Anterior Caudate	brain
14	chr6:25582000-25626800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:25582400-25622200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:25583200-25600600	Weak transcription	Placenta	Placenta
17	chr6:25583600-25623200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr6:25583800-25623200	Weak transcription	Esophagus	oesophagus
19	chr6:25585000-25627000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:25585200-25599600	Weak transcription	Fetal Kidney	kidney
21	chr6:25585200-25629400	Weak transcription	Pancreas	Pancrea
22	chr6:25587400-25622400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr6:25589000-25603000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:25589000-25604600	Weak transcription	Fetal Thymus	thymus
25	chr6:25589200-25623400	Weak transcription	HMEC	breast
26	chr6:25590800-25618000	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr6:25591000-25601600	Strong transcription	Primary T cells from cord blood	blood
28	chr6:25592400-25602400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:25592400-25625600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:25593200-25600000	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr6:25593200-25608800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr6:25593400-25609600	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr6:25593600-25618600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:25593800-25602200	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr6:25594200-25629200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr6:25594400-25600800	Weak transcription	Fetal Intestine Large	intestine
37	chr6:25594400-25618200	Weak transcription	Primary hematopoietic stem cells	blood
38	chr6:25594400-25627200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr6:25594600-25606400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:25594600-25607200	Weak transcription	Aorta	Aorta
41	chr6:25594600-25627200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr6:25594600-25629600	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr6:25594800-25624600	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:25595000-25600600	Weak transcription	Fetal Stomach	stomach
45	chr6:25595000-25626800	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr6:25595000-25627000	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:25595200-25610400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr6:25595400-25600800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:25595400-25602400	Weak transcription	Fetal Lung	lung
50	chr6:25595600-25602200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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