Variant report

Variant	rs61840558
Chromosome Location	chr10:49541064-49541065
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:49540878..49543802-chr10:49546206..49547724,2	K562	blood:
2	chr10:49540944..49543155-chr10:49549106..49551548,2	MCF-7	breast:
3	chr10:49517538..49519332-chr10:49540338..49542175,2	MCF-7	breast:
4	chr10:49517751..49518571-chr10:49540674..49541220,2	MCF-7	breast:
5	chr10:49538148..49542508-chr10:49545021..49547777,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs17010208	0.92[EUR][1000 genomes]
rs17010407	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17010430	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17010447	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17010454	1.00[EUR][1000 genomes]
rs17010455	1.00[EUR][1000 genomes]
rs17010496	0.84[EUR][1000 genomes]
rs17697972	1.00[EUR][1000 genomes]
rs1867586	0.92[EUR][1000 genomes]
rs3730160	1.00[EUR][1000 genomes]
rs3855904	0.88[EUR][1000 genomes]
rs57508520	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58676018	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60992548	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61838668	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838669	0.96[EUR][1000 genomes]
rs61838672	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838673	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61838677	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61838697	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61838698	1.00[EUR][1000 genomes]
rs61838700	1.00[EUR][1000 genomes]
rs61838701	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61838703	0.96[EUR][1000 genomes]
rs61838704	0.90[AFR][1000 genomes];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	0.92[EUR][1000 genomes]
rs61840549	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs61840550	0.92[EUR][1000 genomes]
rs61840556	0.88[EUR][1000 genomes]
rs7089077	0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv895368	chr10:49381635-49551560	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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
6	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
7	nsv947976	chr10:49537663-49541857	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49515600-49541400	Weak transcription	Lung	lung
2	chr10:49516400-49541400	Weak transcription	Right Atrium	heart
3	chr10:49516400-49547200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr10:49516400-49559600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr10:49517800-49544600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr10:49518200-49542200	Weak transcription	HSMM	muscle
7	chr10:49518800-49542000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:49518800-49544000	Weak transcription	Duodenum Mucosa	Duodenum
9	chr10:49520200-49549800	Weak transcription	HUVEC	blood vessel
10	chr10:49522800-49550800	Weak transcription	Small Intestine	intestine
11	chr10:49525000-49541600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr10:49525800-49551800	Weak transcription	Adipose Nuclei	Adipose
13	chr10:49526200-49552000	Weak transcription	NH-A	brain
14	chr10:49529000-49550800	Weak transcription	K562	blood
15	chr10:49530800-49554600	Weak transcription	Fetal Brain Male	brain
16	chr10:49535000-49541800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr10:49535200-49541400	Weak transcription	Esophagus	oesophagus
18	chr10:49535400-49548200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr10:49536800-49541800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr10:49536800-49545200	Weak transcription	Brain Angular Gyrus	brain
21	chr10:49537400-49541800	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr10:49538400-49541200	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr10:49538400-49541200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr10:49538400-49541600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr10:49538400-49543200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
26	chr10:49538400-49543200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr10:49538600-49541200	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr10:49538600-49541200	ZNF genes & repeats	Primary B cells from cord blood	blood
29	chr10:49538600-49541200	ZNF genes & repeats	Fetal Lung	lung
30	chr10:49538600-49541800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
31	chr10:49538600-49542200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr10:49538600-49542800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr10:49538600-49542800	ZNF genes & repeats	Brain Germinal Matrix	brain
34	chr10:49538600-49543000	ZNF genes & repeats	Fetal Stomach	stomach
35	chr10:49538600-49545400	Weak transcription	Hela-S3	cervix
36	chr10:49538600-49551400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr10:49538800-49541800	ZNF genes & repeats	Fetal Muscle Trunk	muscle
38	chr10:49538800-49542800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr10:49538800-49543000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr10:49538800-49544600	Weak transcription	Spleen	Spleen
41	chr10:49538800-49546600	Weak transcription	HSMMtube	muscle
42	chr10:49538800-49551200	Weak transcription	Brain Substantia Nigra	brain
43	chr10:49538800-49551400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr10:49539000-49541400	Weak transcription	Right Ventricle	heart
45	chr10:49539000-49542800	ZNF genes & repeats	Fetal Brain Female	brain
46	chr10:49539000-49551800	Weak transcription	NHLF	lung
47	chr10:49539200-49542800	Weak transcription	Stomach Smooth Muscle	stomach
48	chr10:49539200-49555000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr10:49539400-49541800	Weak transcription	Thymus	Thymus
50	chr10:49539400-49542000	ZNF genes & repeats	Fetal Thymus	thymus

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