Variant report

Variant	rs10875119
Chromosome Location	chr1:98368312-98368313
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10735795	0.89[ASW][hapmap];0.87[MKK][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10747494	0.81[ASW][hapmap];0.87[MKK][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11165918	1.00[AMR][1000 genomes]
rs11165926	0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1333721	0.91[YRI][hapmap]
rs1333722	1.00[EUR][1000 genomes]
rs17100628	0.81[ASW][hapmap];1.00[YRI][hapmap]
rs17117167	1.00[YRI][hapmap]
rs17117173	1.00[YRI][hapmap]
rs17117175	1.00[YRI][hapmap]
rs17117176	1.00[YRI][hapmap]
rs17117179	1.00[YRI][hapmap]
rs17117181	0.81[ASW][hapmap];1.00[YRI][hapmap]
rs17117194	0.81[ASW][hapmap];1.00[YRI][hapmap]
rs17117198	1.00[YRI][hapmap]
rs17117203	1.00[YRI][hapmap]
rs17117207	0.91[YRI][hapmap]
rs17117211	1.00[YRI][hapmap]
rs17117214	0.90[YRI][hapmap]
rs17117218	0.91[YRI][hapmap]
rs17117228	0.91[YRI][hapmap]
rs17117234	0.91[YRI][hapmap]
rs17117251	0.81[ASW][hapmap];1.00[YRI][hapmap]
rs17117438	1.00[EUR][1000 genomes]
rs17117480	1.00[EUR][1000 genomes]
rs17117486	1.00[EUR][1000 genomes]
rs17117488	1.00[EUR][1000 genomes]
rs17117490	1.00[EUR][1000 genomes]
rs17117528	1.00[EUR][1000 genomes]
rs1855376	0.91[YRI][hapmap]
rs4269803	0.89[ASW][hapmap];1.00[LWK][hapmap];0.87[MKK][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4304628	0.89[ASW][hapmap];0.93[LWK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4348763	0.89[ASW][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs4351683	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4367807	1.00[ASW][hapmap];0.81[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs4592283	1.00[EUR][1000 genomes]
rs4970718	0.82[AFR][1000 genomes]
rs55989986	1.00[EUR][1000 genomes]
rs56996093	1.00[AMR][1000 genomes]
rs57429463	1.00[EUR][1000 genomes]
rs57957567	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58211735	1.00[EUR][1000 genomes]
rs58260707	1.00[EUR][1000 genomes]
rs58615096	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59429666	1.00[EUR][1000 genomes]
rs60366086	1.00[EUR][1000 genomes]
rs6604092	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6604119	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74105297	1.00[EUR][1000 genomes]
rs74105460	1.00[EUR][1000 genomes]
rs74106015	1.00[EUR][1000 genomes]
rs74106050	1.00[EUR][1000 genomes]
rs74106053	1.00[EUR][1000 genomes]
rs74106140	1.00[EUR][1000 genomes]
rs74107712	1.00[EUR][1000 genomes]
rs74108221	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74108405	1.00[EUR][1000 genomes]
rs74108407	1.00[EUR][1000 genomes]
rs7511709	0.89[ASW][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7545029	0.89[ASW][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7546038	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs7553943	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9324376	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9324377	1.00[EUR][1000 genomes]
rs9661407	1.00[ASW][hapmap];1.00[LWK][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9727974	0.90[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9729900	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv530049	chr1:97883261-98384614	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1012958	chr1:98081528-98864746	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv871625	chr1:98165091-98564736	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv830725	chr1:98257894-98443497	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv934244	chr1:98260729-98415915	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv871077	chr1:98274132-98541677	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
7	nsv2032	chr1:98319851-98369285	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98357400-98369600	Weak transcription	Fetal Lung	lung
2	chr1:98364400-98369400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr1:98364600-98377200	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr1:98364800-98369400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:98364800-98369400	Weak transcription	Brain Anterior Caudate	brain
6	chr1:98365000-98371000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr1:98365600-98368600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr1:98365600-98369400	Enhancers	Primary neutrophils fromperipheralblood	blood
9	chr1:98366000-98369400	Weak transcription	Brain Substantia Nigra	brain
10	chr1:98366200-98368600	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr1:98366200-98368600	Enhancers	Dnd41	blood
12	chr1:98366600-98368600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr1:98366600-98369600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr1:98366800-98368800	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr1:98366800-98369600	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr1:98366800-98370400	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr1:98367000-98368800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr1:98367000-98369200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:98367000-98369400	Weak transcription	Right Atrium	heart
20	chr1:98367000-98371000	Weak transcription	Primary hematopoietic stem cells	blood
21	chr1:98367000-98375800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
22	chr1:98367200-98368400	Weak transcription	Colon Smooth Muscle	Colon
23	chr1:98367200-98369200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr1:98367200-98369200	Weak transcription	HMEC	breast
25	chr1:98367200-98369200	Weak transcription	HSMMtube	muscle
26	chr1:98367200-98369400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr1:98367200-98369400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr1:98367200-98369400	Enhancers	Muscle Satellite Cultured Cells	--
29	chr1:98367200-98369400	Weak transcription	HSMM	muscle
30	chr1:98367200-98369400	Enhancers	Osteobl	bone
31	chr1:98367200-98370400	Weak transcription	Primary B cells from cord blood	blood
32	chr1:98367200-98373200	Enhancers	NHDF-Ad	bronchial
33	chr1:98367400-98369000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr1:98367400-98369000	Weak transcription	NHLF	lung
35	chr1:98367400-98369400	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr1:98367400-98370400	Enhancers	HUVEC	blood vessel
37	chr1:98367400-98382200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr1:98367600-98369000	Weak transcription	Liver	Liver
39	chr1:98367800-98369400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr1:98367800-98369400	Weak transcription	Hela-S3	cervix
41	chr1:98367800-98370000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr1:98368000-98368400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr1:98368000-98368800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr1:98368000-98369200	Weak transcription	NH-A	brain
45	chr1:98368000-98369400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr1:98368000-98369400	Weak transcription	Adipose Nuclei	Adipose
47	chr1:98368000-98376800	Weak transcription	Primary T cells from cord blood	blood
48	chr1:98368000-98377000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr1:98368000-98384000	Weak transcription	Duodenum Smooth Muscle	Duodenum

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