Variant report

Variant	rs10798006
Chromosome Location	chr1:185269916-185269917
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	chr1:185268105..185270547-chr1:185274486..185277127,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000116679	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10158623	0.82[EUR][1000 genomes]
rs10174	0.89[EUR][1000 genomes]
rs10218496	0.80[ASN][1000 genomes]
rs10798002	0.80[EUR][1000 genomes]
rs10798003	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10798004	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10911700	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10911702	0.88[EUR][1000 genomes]
rs10911704	0.85[EUR][1000 genomes]
rs10911706	0.85[ASN][1000 genomes]
rs10911707	0.94[EUR][1000 genomes]
rs10911708	0.84[EUR][1000 genomes]
rs12026391	0.88[EUR][1000 genomes]
rs12119471	0.82[ASN][1000 genomes]
rs12127840	0.82[ASN][1000 genomes]
rs12135172	0.82[ASN][1000 genomes]
rs12135769	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12136040	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1336753	0.94[ASN][1000 genomes]
rs17641003	0.86[EUR][1000 genomes]
rs1889976	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2095610	0.92[ASN][1000 genomes]
rs2152707	0.83[EUR][1000 genomes]
rs2281416	0.92[EUR][1000 genomes]
rs2295212	0.85[ASN][1000 genomes]
rs2378909	0.86[EUR][1000 genomes]
rs2378910	0.81[EUR][1000 genomes]
rs2383269	0.81[ASN][1000 genomes]
rs34611062	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57977436	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6424975	0.85[ASN][1000 genomes]
rs6666742	0.81[ASN][1000 genomes]
rs6682891	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6685627	0.81[EUR][1000 genomes]
rs6687774	0.92[EUR][1000 genomes]
rs7123	0.91[EUR][1000 genomes]
rs726567	0.86[EUR][1000 genomes]
rs7537341	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7539575	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7539658	0.81[ASN][1000 genomes]
rs7542721	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7550599	0.80[ASN][1000 genomes]
rs883753	0.80[EUR][1000 genomes]
rs997283	0.92[EUR][1000 genomes]
rs9988622	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185240800-185273000	Weak transcription	Spleen	Spleen
2	chr1:185245800-185273000	Weak transcription	Right Ventricle	heart
3	chr1:185260800-185275200	Weak transcription	Small Intestine	intestine
4	chr1:185261400-185278800	Strong transcription	HUVEC	blood vessel
5	chr1:185261800-185278800	Strong transcription	Fetal Brain Female	brain
6	chr1:185262000-185279000	Strong transcription	HSMMtube	muscle
7	chr1:185262000-185279400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr1:185262000-185279800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:185262000-185280400	Strong transcription	Placenta	Placenta
10	chr1:185262000-185280800	Strong transcription	HMEC	breast
11	chr1:185262000-185281000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr1:185262000-185281600	Strong transcription	Fetal Thymus	thymus
13	chr1:185262000-185281800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:185262000-185281800	Strong transcription	HSMM	muscle
15	chr1:185262200-185277600	Strong transcription	Left Ventricle	heart
16	chr1:185262200-185278400	Strong transcription	Primary T cells from cord blood	blood
17	chr1:185262200-185278800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr1:185262200-185280400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:185262200-185280600	Strong transcription	NH-A	brain
20	chr1:185262200-185281000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr1:185262400-185278200	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr1:185262400-185278600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr1:185262400-185278600	Weak transcription	Stomach Mucosa	stomach
24	chr1:185262400-185278800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr1:185262400-185280400	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr1:185262600-185280400	Strong transcription	Primary hematopoietic stem cells	blood
27	chr1:185262600-185280400	Strong transcription	Osteobl	bone
28	chr1:185262800-185272000	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr1:185262800-185280600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr1:185263000-185271600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:185263000-185278000	Strong transcription	Brain Hippocampus Middle	brain
32	chr1:185263000-185278800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr1:185263000-185278800	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr1:185263000-185280000	Strong transcription	Brain Germinal Matrix	brain
35	chr1:185263000-185280400	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr1:185263000-185281400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr1:185263200-185274800	Strong transcription	Liver	Liver
38	chr1:185263200-185279200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr1:185263200-185279800	Strong transcription	Primary B cells from cord blood	blood
40	chr1:185263200-185280200	Strong transcription	Dnd41	blood
41	chr1:185263200-185280400	Strong transcription	Duodenum Mucosa	Duodenum
42	chr1:185263200-185280400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr1:185263200-185280800	Strong transcription	NHEK	skin
44	chr1:185263400-185278400	Strong transcription	Fetal Kidney	kidney
45	chr1:185263400-185278600	Strong transcription	Skeletal Muscle Female	skeletal muscle
46	chr1:185263400-185278800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr1:185263600-185273200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr1:185263600-185278800	Strong transcription	Primary monocytes fromperipheralblood	blood
49	chr1:185263600-185278800	Strong transcription	Adipose Nuclei	Adipose
50	chr1:185263600-185278800	Strong transcription	Brain Inferior Temporal Lobe	brain

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