Variant report

Variant	rs853677
Chromosome Location	chr6:28297383-28297384
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28104111..28106206-chr6:28296771..28301344,4	K562	blood:
2	chr6:28235190..28237115-chr6:28295999..28298391,2	K562	blood:
3	chr6:28103055..28111556-chr6:28296771..28308203,17	K562	blood:
4	chr6:28265276..28267226-chr6:28297300..28300691,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198315	Chromatin interaction
ENSG00000261839	Chromatin interaction
ENSG00000269293	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1144707	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs1150667	1.00[AMR][1000 genomes]
rs1150675	1.00[AMR][1000 genomes]
rs1150677	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs1150681	1.00[AMR][1000 genomes]
rs1150706	1.00[AMR][1000 genomes]
rs12208060	1.00[AMR][1000 genomes]
rs1225589	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1225601	1.00[AMR][1000 genomes]
rs1233663	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs1233668	1.00[AMR][1000 genomes]
rs1778485	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs213229	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs213234	1.00[AMR][1000 genomes]
rs213242	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2394048	1.00[AMR][1000 genomes]
rs2531829	1.00[AMR][1000 genomes]
rs2743874	1.00[YRI][hapmap]
rs2799080	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2859357	1.00[YRI][hapmap]
rs2859361	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2859366	1.00[AMR][1000 genomes]
rs4713154	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs59183152	1.00[AMR][1000 genomes]
rs853675	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs853680	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs853686	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs853691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs853692	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][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	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28288200-28299200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr6:28290800-28298200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
3	chr6:28291400-28298000	ZNF genes & repeats	Liver	Liver
4	chr6:28294800-28302000	Weak transcription	HepG2	liver
5	chr6:28294800-28302800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr6:28295400-28301400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:28295400-28302400	Weak transcription	Brain Angular Gyrus	brain
8	chr6:28295400-28302800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:28295400-28303000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:28295400-28303000	Weak transcription	Thymus	Thymus
11	chr6:28295600-28297800	Weak transcription	K562	blood
12	chr6:28295600-28302000	Weak transcription	Fetal Heart	heart
13	chr6:28295600-28302200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:28295600-28302200	Weak transcription	Hela-S3	cervix
15	chr6:28295600-28302400	Weak transcription	Brain Substantia Nigra	brain
16	chr6:28295600-28302600	Weak transcription	Stomach Mucosa	stomach
17	chr6:28295600-28302800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:28295600-28302800	Weak transcription	Fetal Brain Male	brain
19	chr6:28295800-28302800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:28296400-28297400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:28296400-28297400	Strong transcription	Left Ventricle	heart
22	chr6:28296600-28297400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
23	chr6:28296600-28297400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
24	chr6:28296600-28297400	ZNF genes & repeats	Colon Smooth Muscle	Colon
25	chr6:28296600-28297400	ZNF genes & repeats	Fetal Intestine Large	intestine
26	chr6:28296600-28297400	ZNF genes & repeats	Fetal Intestine Small	intestine
27	chr6:28296600-28297400	ZNF genes & repeats	Fetal Stomach	stomach
28	chr6:28296600-28297400	ZNF genes & repeats	Ovary	ovary
29	chr6:28296600-28297600	ZNF genes & repeats	Fetal Muscle Leg	muscle
30	chr6:28296600-28298200	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
31	chr6:28296800-28297400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr6:28296800-28297400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:28296800-28297400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:28296800-28297400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
35	chr6:28296800-28297400	ZNF genes & repeats	Aorta	Aorta
36	chr6:28296800-28297400	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr6:28296800-28297400	ZNF genes & repeats	Esophagus	oesophagus
38	chr6:28296800-28297400	ZNF genes & repeats	Lung	lung
39	chr6:28296800-28297400	ZNF genes & repeats	Psoas Muscle	Psoas
40	chr6:28296800-28297400	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
41	chr6:28296800-28297600	Strong transcription	Brain Inferior Temporal Lobe	brain
42	chr6:28296800-28298200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
43	chr6:28297000-28297400	ZNF genes & repeats	Fetal Muscle Trunk	muscle
44	chr6:28297000-28297400	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
45	chr6:28297000-28298200	Weak transcription	Brain Germinal Matrix	brain
46	chr6:28297000-28302000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:28297000-28302800	Weak transcription	Colonic Mucosa	Colon
48	chr6:28297000-28303400	Weak transcription	Gastric	stomach
49	chr6:28297200-28297400	ZNF genes & repeats	Fetal Brain Female	brain
50	chr6:28297200-28297600	Strong transcription	Stomach Smooth Muscle	stomach

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