Variant report

Variant	rs1556002
Chromosome Location	chr10:21657474-21657475
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	chr10:21630261..21632474-chr10:21656869..21658664,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C10orf114-2	chr10:21657426-21657484	XLOC_008745

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10828238	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11012681	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12245880	0.85[AMR][1000 genomes]
rs16921773	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs4381272	0.84[AMR][1000 genomes]
rs4448595	0.85[AMR][1000 genomes]
rs57816128	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58809874	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7068408	0.83[CEU][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7086407	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7898040	0.83[CEU][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530148	chr10:21065080-21724565	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv831807	chr10:21509185-21688043	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21652200-21658000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr10:21652200-21661200	Weak transcription	Right Atrium	heart
3	chr10:21652600-21658000	Weak transcription	Fetal Stomach	stomach
4	chr10:21652600-21661800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr10:21652800-21661800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:21654000-21661600	Weak transcription	NHLF	lung
7	chr10:21654000-21661800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr10:21654000-21662000	Weak transcription	Spleen	Spleen
9	chr10:21654000-21676800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:21654200-21657600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr10:21654200-21658000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:21654200-21658200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr10:21654200-21661800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr10:21654200-21661800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr10:21654200-21661800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr10:21654200-21662000	Weak transcription	K562	blood
17	chr10:21654200-21681400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr10:21654400-21658000	Weak transcription	Fetal Heart	heart
19	chr10:21654400-21658000	Weak transcription	NH-A	brain
20	chr10:21654400-21658200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr10:21654400-21658600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr10:21654600-21658000	Weak transcription	Fetal Muscle Leg	muscle
23	chr10:21654600-21662000	Weak transcription	Left Ventricle	heart
24	chr10:21655200-21661600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:21655200-21661600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr10:21655200-21661600	Weak transcription	NHDF-Ad	bronchial
27	chr10:21655200-21661600	Weak transcription	Osteobl	bone
28	chr10:21655800-21661200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:21655800-21661600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr10:21656000-21659000	Enhancers	Placenta	Placenta
31	chr10:21656200-21659200	Enhancers	Placenta Amnion	Placenta Amnion
32	chr10:21656400-21659400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr10:21656400-21659400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr10:21656600-21658400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr10:21656600-21659000	Enhancers	Fetal Lung	lung
36	chr10:21656800-21658400	Genic enhancers	A549	lung
37	chr10:21656800-21659000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr10:21656800-21659200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:21656800-21659200	Enhancers	NHEK	skin
40	chr10:21657000-21657600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr10:21657000-21659000	Enhancers	Primary hematopoietic stem cells short term culture	blood
42	chr10:21657000-21659000	Enhancers	HMEC	breast
43	chr10:21657200-21659000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr10:21657200-21659000	Enhancers	Primary monocytes fromperipheralblood	blood
45	chr10:21657400-21657600	Enhancers	Primary hematopoietic stem cells	blood
46	chr10:21657400-21657600	Enhancers	Fetal Intestine Large	intestine
47	chr10:21657400-21657800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr10:21657400-21658200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr10:21657400-21658200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr10:21657400-21658200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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