Variant report

Variant	rs28780090
Chromosome Location	chr6:30187290-30187291
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30186843..30187585-chr6:30364587..30365117,2	MCF-7	breast:
2	chr6:30185779..30188163-chr6:30312459..30314446,2	MCF-7	breast:
3	chr6:30186670..30187594-chr6:30364355..30365372,7	K562	blood:
4	chr6:30187236..30189646-chr6:30189831..30192507,2	K562	blood:
5	chr16:931776..932561-chr6:30187031..30187732,2	MCF-7	breast:
6	chr6:30175583..30179292-chr6:30184478..30187344,3	K562	blood:
7	chr6:30032989..30035787-chr6:30185731..30187917,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204619	Chromatin interaction
ENSG00000241370	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs28780084	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28780085	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28780087	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28780088	1.00[ASN][1000 genomes]
rs28780089	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28780092	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28780096	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28780098	0.90[EUR][1000 genomes];1.00[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	nsv884058	chr6:30182395-30202429	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30182600-30189200	Weak transcription	Right Atrium	heart
2	chr6:30185400-30190400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:30186400-30187800	Enhancers	HepG2	liver
4	chr6:30186600-30187400	Enhancers	Liver	Liver
5	chr6:30186800-30187400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr6:30186800-30187400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr6:30186800-30187400	Enhancers	Duodenum Mucosa	Duodenum
8	chr6:30186800-30187400	Enhancers	Rectal Mucosa Donor 29	rectum
9	chr6:30187000-30187400	Enhancers	Primary T cells fromperipheralblood	blood
10	chr6:30187000-30187400	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr6:30187000-30187400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:30187000-30187400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:30187000-30187400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:30187000-30187400	Enhancers	Brain Angular Gyrus	brain
15	chr6:30187000-30187400	Enhancers	Fetal Thymus	thymus
16	chr6:30187000-30187400	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr6:30187000-30187600	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr6:30187200-30187400	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr6:30187200-30187400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr6:30187200-30187400	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr6:30187200-30187400	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr6:30187200-30187400	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr6:30187200-30187400	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr6:30187200-30187400	Enhancers	Brain Cingulate Gyrus	brain
25	chr6:30187200-30187400	Enhancers	Brain Hippocampus Middle	brain
26	chr6:30187200-30187400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
27	chr6:30187200-30187400	Enhancers	Colon Smooth Muscle	Colon
28	chr6:30187200-30187400	Enhancers	Sigmoid Colon	Sigmoid Colon
29	chr6:30187200-30187400	Enhancers	Stomach Mucosa	stomach
30	chr6:30187200-30187600	Enhancers	Primary neutrophils fromperipheralblood	blood
31	chr6:30187200-30187600	Enhancers	Primary B cells from peripheral blood	blood
32	chr6:30187200-30187600	Enhancers	Primary hematopoietic stem cells	blood
33	chr6:30187200-30187600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr6:30187200-30187600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
35	chr6:30187200-30187600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr6:30187200-30187600	Enhancers	Adipose Nuclei	Adipose
37	chr6:30187200-30187600	Enhancers	Fetal Intestine Large	intestine
38	chr6:30187200-30187600	Enhancers	Monocytes-CD14+_RO01746	blood

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