Variant report

Variant	rs28800635
Chromosome Location	chr10:38256099-38256100
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:38246641..38248987-chr10:38255413..38257422,2	MCF-7	breast:
2	chr10:38254056..38257751-chr10:38264663..38268366,3	MCF-7	breast:
3	chr10:38253941..38256453-chr10:38258306..38260474,2	K562	blood:

Variant related genes	Relation type
ENSG00000226447	Chromatin interaction
ENSG00000175395	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11011446	1.00[AMR][1000 genomes]
rs11498322	1.00[EUR][1000 genomes]
rs12241800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12245828	1.00[AMR][1000 genomes]
rs12246655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12251235	1.00[AMR][1000 genomes]
rs12252272	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12252418	1.00[AMR][1000 genomes]
rs12252533	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12252678	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12258811	1.00[AMR][1000 genomes]
rs12260004	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12265670	1.00[AMR][1000 genomes]
rs12773859	1.00[AMR][1000 genomes]
rs12775243	1.00[EUR][1000 genomes]
rs12782465	1.00[EUR][1000 genomes]
rs34905591	1.00[EUR][1000 genomes]
rs35642112	1.00[AMR][1000 genomes]
rs643259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs71491209	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv1051121	chr10:38155991-38426204	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv540565	chr10:38155991-38426204	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv1052703	chr10:38174640-38266472	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv534122	chr10:38240258-38356008	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38239600-38264400	Weak transcription	Fetal Heart	heart
2	chr10:38239600-38264600	Weak transcription	Stomach Mucosa	stomach
3	chr10:38240800-38264000	Weak transcription	NHLF	lung
4	chr10:38241800-38264400	Weak transcription	NHEK	skin
5	chr10:38242600-38264400	Weak transcription	HUVEC	blood vessel
6	chr10:38246400-38257600	Weak transcription	Psoas Muscle	Psoas
7	chr10:38246400-38264000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr10:38246400-38264400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr10:38247000-38263000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr10:38247400-38257600	Weak transcription	NHDF-Ad	bronchial
11	chr10:38251800-38259200	ZNF genes & repeats	Brain Germinal Matrix	brain
12	chr10:38252200-38260000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr10:38252200-38260600	ZNF genes & repeats	Fetal Brain Female	brain
14	chr10:38252800-38256600	ZNF genes & repeats	Dnd41	blood
15	chr10:38252800-38256800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:38252800-38259000	ZNF genes & repeats	Fetal Muscle Leg	muscle
17	chr10:38253000-38256400	ZNF genes & repeats	Liver	Liver
18	chr10:38253000-38256600	ZNF genes & repeats	Fetal Intestine Small	intestine
19	chr10:38253000-38258600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
20	chr10:38253200-38256400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
21	chr10:38253200-38256600	ZNF genes & repeats	Primary T cells from cord blood	blood
22	chr10:38253200-38260000	Strong transcription	Skeletal Muscle Female	skeletal muscle
23	chr10:38253400-38257000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
24	chr10:38253400-38257400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
25	chr10:38253400-38260000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr10:38253600-38256400	ZNF genes & repeats	Fetal Lung	lung
27	chr10:38253600-38256800	Strong transcription	Right Ventricle	heart
28	chr10:38253800-38263600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr10:38254000-38263800	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr10:38254200-38257600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr10:38254200-38261800	Weak transcription	Esophagus	oesophagus
32	chr10:38254200-38264000	Weak transcription	Rectal Smooth Muscle	rectum
33	chr10:38254200-38264200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr10:38254200-38264400	Weak transcription	NH-A	brain
35	chr10:38254200-38264600	Weak transcription	Gastric	stomach
36	chr10:38254200-38264600	Weak transcription	Pancreas	Pancrea
37	chr10:38254400-38256400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr10:38254400-38256400	Weak transcription	Left Ventricle	heart
39	chr10:38254400-38256800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr10:38254400-38257000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr10:38254400-38257000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr10:38254400-38257600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr10:38254400-38257600	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr10:38254400-38257600	Weak transcription	HSMM	muscle
45	chr10:38254400-38263600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr10:38254400-38263600	Weak transcription	Brain Angular Gyrus	brain
47	chr10:38254400-38264400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr10:38254400-38264400	Weak transcription	Aorta	Aorta
49	chr10:38254600-38256200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr10:38254600-38256200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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