Variant report

Variant	rs17010407
Chromosome Location	chr10:49570404-49570405
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:49528793..49531665-chr10:49568295..49570746,2	K562	blood:
2	chr10:49569844..49571916-chr17:59471462..59473939,2	MCF-7	breast:
3	chr10:49570196..49573404-chr10:49729951..49734102,5	K562	blood:
4	chr10:49565426..49568203-chr10:49568307..49571165,2	K562	blood:

Variant related genes	Relation type
ENSG00000128805	Chromatin interaction
ENSG00000267280	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10508900	0.82[CEU][hapmap]
rs17009540	0.82[CEU][hapmap]
rs17010208	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs17010430	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17010447	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17010454	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17010455	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17010496	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17697972	1.00[EUR][1000 genomes]
rs1867586	0.92[EUR][1000 genomes]
rs3730160	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3855904	0.88[EUR][1000 genomes]
rs57508520	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58676018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60992548	1.00[EUR][1000 genomes]
rs61838668	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838669	0.96[EUR][1000 genomes]
rs61838672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838673	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838677	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838697	1.00[EUR][1000 genomes]
rs61838698	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61838700	1.00[EUR][1000 genomes]
rs61838701	1.00[EUR][1000 genomes]
rs61838703	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs61838704	1.00[EUR][1000 genomes]
rs61838707	0.92[EUR][1000 genomes]
rs61838708	0.88[EUR][1000 genomes]
rs61838722	0.84[EUR][1000 genomes]
rs61838723	0.84[EUR][1000 genomes]
rs61838724	0.80[EUR][1000 genomes]
rs61838726	0.84[EUR][1000 genomes]
rs61838728	0.84[EUR][1000 genomes]
rs61838730	0.84[EUR][1000 genomes]
rs61838731	0.84[EUR][1000 genomes]
rs61838735	0.84[EUR][1000 genomes]
rs61840548	0.88[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs61840549	0.92[EUR][1000 genomes]
rs61840550	0.88[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs61840556	0.88[EUR][1000 genomes]
rs61840558	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7089077	0.96[EUR][1000 genomes]

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	nsv895366	chr10:49299274-49576454	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv467190	chr10:49402084-49576878	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv550811	chr10:49402084-49576878	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
5	nsv6587	chr10:49526329-49571804	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49543000-49576200	Weak transcription	Right Atrium	heart
2	chr10:49559600-49572000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:49563600-49572000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr10:49566000-49571800	Weak transcription	Adipose Nuclei	Adipose
5	chr10:49566000-49573200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr10:49566400-49580000	Weak transcription	Colon Smooth Muscle	Colon
7	chr10:49566800-49571800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr10:49568000-49571200	Weak transcription	Liver	Liver
9	chr10:49568200-49573000	Weak transcription	Brain Anterior Caudate	brain
10	chr10:49568600-49571600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr10:49568600-49582000	Weak transcription	Psoas Muscle	Psoas
12	chr10:49568800-49571800	Weak transcription	Brain Angular Gyrus	brain
13	chr10:49568800-49571800	Weak transcription	NHLF	lung
14	chr10:49568800-49572000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr10:49568800-49573200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr10:49568800-49576400	Weak transcription	Ovary	ovary
17	chr10:49569000-49572000	Enhancers	Fetal Heart	heart
18	chr10:49569400-49571200	Weak transcription	K562	blood
19	chr10:49569400-49571800	Weak transcription	NHDF-Ad	bronchial
20	chr10:49569400-49573000	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr10:49569400-49574400	Weak transcription	Rectal Smooth Muscle	rectum
22	chr10:49569600-49571200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr10:49569600-49571800	Weak transcription	HSMM	muscle
24	chr10:49569800-49571800	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr10:49570200-49571400	Weak transcription	A549	lung
26	chr10:49570200-49571400	Weak transcription	HUVEC	blood vessel
27	chr10:49570200-49571800	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr10:49570200-49571800	Weak transcription	Fetal Lung	lung
29	chr10:49570400-49571800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr10:49570400-49571800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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