Variant report

Variant	rs1904201
Chromosome Location	chr9:97703657-97703658
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97702356..97704660-chr9:97713620..97715867,3	MCF-7	breast:
2	chr9:97702032..97704710-chr9:97710037..97711547,2	K562	blood:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs1004813	0.82[JPT][hapmap]
rs10125566	0.81[AMR][1000 genomes]
rs10217441	0.81[AMR][1000 genomes]
rs10512252	0.82[JPT][hapmap]
rs10732407	0.81[AMR][1000 genomes]
rs10739988	0.81[AMR][1000 genomes]
rs10739990	0.81[AMR][1000 genomes]
rs10739991	0.82[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes]
rs10821411	0.81[AMR][1000 genomes]
rs10993435	1.00[CEU][hapmap]
rs10993449	1.00[CEU][hapmap]
rs1113967	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs12551506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12552838	0.97[AMR][1000 genomes]
rs12554043	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12682668	0.82[JPT][hapmap]
rs12683896	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12684139	0.82[JPT][hapmap]
rs12684154	0.82[JPT][hapmap]
rs12684461	0.82[JPT][hapmap]
rs12684470	0.82[JPT][hapmap]
rs12686277	0.82[JPT][hapmap]
rs12686500	0.82[JPT][hapmap]
rs1382411	0.86[AMR][1000 genomes]
rs1382412	0.86[AMR][1000 genomes]
rs1530331	0.82[JPT][hapmap]
rs1542107	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs1571897	1.00[JPT][hapmap]
rs16905557	0.82[JPT][hapmap]
rs16911801	0.82[JPT][hapmap]
rs16911802	0.82[JPT][hapmap]
rs16911817	0.82[JPT][hapmap]
rs16911821	0.82[JPT][hapmap]
rs16911826	0.82[JPT][hapmap]
rs16911834	0.97[AMR][1000 genomes]
rs1806996	0.82[JPT][hapmap]
rs2026399	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2078379	0.82[JPT][hapmap]
rs2095069	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2119953	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs2406897	0.81[AMR][1000 genomes]
rs2406898	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs2896816	1.00[CEU][hapmap]
rs2897523	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs3824493	0.82[JPT][hapmap]
rs3847309	0.82[JPT][hapmap]
rs3847310	0.82[JPT][hapmap]
rs3847311	0.84[AMR][1000 genomes]
rs3886567	0.82[JPT][hapmap]
rs3886568	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs41316526	0.86[AMR][1000 genomes]
rs4332191	0.81[AMR][1000 genomes]
rs4743976	0.85[JPT][hapmap]
rs4744389	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs6479568	0.82[JPT][hapmap]
rs6479576	0.82[JPT][hapmap]
rs6479581	0.81[AMR][1000 genomes]
rs66642068	0.86[AMR][1000 genomes]
rs66863985	0.86[AMR][1000 genomes]
rs66993340	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs67490803	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67756624	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7019602	0.81[AMR][1000 genomes]
rs7026714	0.82[JPT][hapmap]
rs7029570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7035166	0.82[JPT][hapmap]
rs7038519	0.82[JPT][hapmap]
rs7042271	1.00[CEU][hapmap]
rs7044371	0.81[AMR][1000 genomes]
rs7045005	0.82[JPT][hapmap]
rs7046900	0.97[AMR][1000 genomes]
rs72748601	0.97[AMR][1000 genomes]
rs73538177	0.86[AMR][1000 genomes]
rs7465900	0.82[JPT][hapmap]
rs7850601	0.82[JPT][hapmap]
rs7850680	0.82[JPT][hapmap]
rs7869736	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs7870679	0.82[JPT][hapmap]
rs894426	0.81[AMR][1000 genomes]
rs894427	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs894428	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1045849	chr9:97688810-97741336	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97670600-97766000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr9:97682000-97713800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr9:97684800-97711000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:97685200-97714600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:97687000-97714000	Weak transcription	Thymus	Thymus
6	chr9:97691800-97710800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:97692200-97713000	Weak transcription	Primary T cells from cord blood	blood
8	chr9:97692400-97707600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr9:97693400-97712600	Weak transcription	Gastric	stomach
10	chr9:97695600-97709000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr9:97699800-97706400	Weak transcription	Brain Angular Gyrus	brain
12	chr9:97700200-97707200	Weak transcription	Brain Hippocampus Middle	brain
13	chr9:97700200-97707400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr9:97700200-97707400	Weak transcription	Brain Substantia Nigra	brain
15	chr9:97700200-97707600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr9:97700200-97707600	Weak transcription	Stomach Smooth Muscle	stomach
17	chr9:97700200-97707800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr9:97700200-97708200	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr9:97700200-97714600	Weak transcription	Fetal Stomach	stomach
20	chr9:97700200-97718600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:97700400-97707200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr9:97700600-97706600	Weak transcription	NHEK	skin
23	chr9:97701200-97707600	Weak transcription	K562	blood
24	chr9:97702400-97704000	Enhancers	Stomach Mucosa	stomach
25	chr9:97702400-97704600	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:97702400-97705000	Enhancers	Pancreatic Islets	Pancreatic Islet
27	chr9:97702600-97704000	Genic enhancers	Fetal Muscle Leg	muscle
28	chr9:97702600-97704000	Enhancers	Lung	lung
29	chr9:97702600-97704000	Enhancers	Psoas Muscle	Psoas
30	chr9:97702600-97704000	Enhancers	Right Atrium	heart
31	chr9:97702600-97704800	Enhancers	Fetal Intestine Small	intestine
32	chr9:97702600-97705200	Enhancers	Fetal Intestine Large	intestine
33	chr9:97702800-97704000	Enhancers	Small Intestine	intestine
34	chr9:97703000-97703800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr9:97703000-97703800	Enhancers	Colonic Mucosa	Colon
36	chr9:97703000-97703800	Enhancers	Esophagus	oesophagus
37	chr9:97703000-97703800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr9:97703000-97703800	Enhancers	Sigmoid Colon	Sigmoid Colon
39	chr9:97703000-97703800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
40	chr9:97703000-97703800	Enhancers	Spleen	Spleen
41	chr9:97703000-97704000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr9:97703000-97704000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr9:97703000-97704000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr9:97703000-97704000	Enhancers	Adipose Nuclei	Adipose
45	chr9:97703000-97704000	Enhancers	Aorta	Aorta
46	chr9:97703000-97704000	Enhancers	Brain Anterior Caudate	brain
47	chr9:97703000-97704000	Enhancers	Duodenum Mucosa	Duodenum
48	chr9:97703000-97704000	Enhancers	Left Ventricle	heart
49	chr9:97703000-97704000	Enhancers	Ovary	ovary
50	chr9:97703000-97704000	Enhancers	Pancreas	Pancrea

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