Variant report

Variant	rs3891620
Chromosome Location	chr10:5956834-5956835
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	chr10:5944902..5949074-chr10:5954801..5958061,6	K562	blood:
2	chr10:5854116..5856845-chr10:5956158..5957736,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000057608	Chromatin interaction
ENSG00000272764	Chromatin interaction
ENSG00000134452	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10795823	1.00[MEX][hapmap]
rs11255974	0.95[YRI][hapmap]
rs11813524	1.00[MEX][hapmap]
rs12261535	1.00[MEX][hapmap]
rs12360409	0.94[YRI][hapmap]
rs12722641	1.00[MEX][hapmap]
rs12722698	1.00[MEX][hapmap]
rs12774228	0.84[LWK][hapmap];0.95[YRI][hapmap]
rs12774886	1.00[YRI][hapmap]
rs17319759	0.88[LWK][hapmap];1.00[YRI][hapmap]
rs2387092	0.84[LWK][hapmap];0.95[YRI][hapmap]
rs6602330	0.81[LWK][hapmap];0.80[YRI][hapmap]
rs7067928	0.80[YRI][hapmap]
rs7082434	0.82[LWK][hapmap];0.80[YRI][hapmap]
rs7090411	0.92[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv825229	chr10:5886905-5967697	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5933200-5977000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:5935600-5962000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr10:5944000-5981600	Strong transcription	Fetal Intestine Small	intestine
4	chr10:5944600-5981200	Strong transcription	Fetal Thymus	thymus
5	chr10:5945800-5980800	Strong transcription	Thymus	Thymus
6	chr10:5947000-5980800	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr10:5947000-5981600	Strong transcription	Placenta	Placenta
8	chr10:5947200-5981000	Strong transcription	Fetal Intestine Large	intestine
9	chr10:5947400-5970800	Strong transcription	Liver	Liver
10	chr10:5947400-5974400	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr10:5947400-5981200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr10:5947600-5968400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr10:5947600-5968600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr10:5947600-5968600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr10:5947600-5975000	Strong transcription	Primary T cells from cord blood	blood
16	chr10:5947600-5981000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:5947600-5981000	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr10:5947600-5981000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr10:5947600-5981000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr10:5947600-5981200	Strong transcription	Primary B cells from peripheral blood	blood
21	chr10:5947800-5961000	Strong transcription	Fetal Brain Female	brain
22	chr10:5947800-5974000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr10:5947800-5974400	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr10:5947800-5974600	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr10:5948000-5960200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr10:5948000-5974600	Strong transcription	Fetal Lung	lung
27	chr10:5948000-5974800	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr10:5948000-5975000	Strong transcription	Primary B cells from cord blood	blood
29	chr10:5948000-5975800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr10:5948200-5974000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr10:5948200-5974800	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr10:5948400-5981000	Strong transcription	Duodenum Smooth Muscle	Duodenum
33	chr10:5948400-5981000	Strong transcription	Stomach Smooth Muscle	stomach
34	chr10:5948600-5981000	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr10:5948800-5974200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr10:5948800-5981000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr10:5948800-5981000	Strong transcription	Duodenum Mucosa	Duodenum
38	chr10:5948800-5981600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr10:5949400-5970200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:5949600-5960600	Strong transcription	NHLF	lung
41	chr10:5949600-5975600	Strong transcription	Primary neutrophils fromperipheralblood	blood
42	chr10:5949800-5960800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
43	chr10:5949800-5967200	Strong transcription	Adipose Nuclei	Adipose
44	chr10:5949800-5973400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr10:5949800-5975000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
46	chr10:5950000-5976400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr10:5950000-5980400	Strong transcription	Dnd41	blood
48	chr10:5950200-5975800	Strong transcription	Brain Germinal Matrix	brain
49	chr10:5950200-5981000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr10:5950600-5959800	Strong transcription	NHEK	skin

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