Variant report

Variant	rs59774396
Chromosome Location	chr1:93651635-93651636
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	chr1:93651565..93653147-chr1:94312067..94314302,2	MCF-7	breast:
2	chr1:93650348..93652669-chr1:93667602..93669955,2	K562	blood:

Variant related genes	Relation type
ENSG00000211575	Chromatin interaction
ENSG00000137936	Chromatin interaction
ENSG00000260464	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10489733	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1057256	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11799543	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11799928	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11800760	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11801175	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11801563	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11802420	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11802421	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11802822	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11805267	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11807404	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11808445	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11809153	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12239183	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28829343	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3171	0.82[ASN][1000 genomes]
rs41528947	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55734759	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55738503	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55741554	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56281837	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56401576	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56657492	1.00[ASN][1000 genomes]
rs58505360	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs58770710	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58807475	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59368083	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59609847	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60079850	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60497651	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60813039	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61252284	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61335636	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61671588	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs61690932	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61729705	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6541348	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6541360	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6541398	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6663752	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6664190	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6667540	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6671070	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6675991	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6677114	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6679304	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6679630	0.82[ASN][1000 genomes]
rs6688199	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6689867	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6695142	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6701683	0.82[ASN][1000 genomes]
rs6704067	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72955402	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72957210	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72957220	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72957300	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72959204	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72959216	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959225	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs72959236	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959238	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959240	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959245	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72959255	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959260	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959267	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72959273	0.82[ASN][1000 genomes]
rs72961310	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs72961322	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72961328	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs74101458	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74101470	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs74104014	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74104019	1.00[EUR][1000 genomes]
rs7512471	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7518171	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7518930	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7527459	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7529230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533526	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7537939	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7540960	0.82[ASN][1000 genomes]
rs7544352	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7545154	1.00[EUR][1000 genomes]
rs7545358	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7548629	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs754899	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs8489	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8561	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9324347	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9659202	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9662414	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]

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	nsv830614	chr1:93465978-93678700	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv830625	chr1:93566378-93735246	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 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	chr1:93646600-93660400	Weak transcription	Lung	lung
2	chr1:93646800-93664600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:93647000-93663600	Weak transcription	Fetal Stomach	stomach
4	chr1:93647000-93664600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:93647000-93688000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr1:93647000-93688600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:93647000-93756400	Weak transcription	Gastric	stomach
8	chr1:93647200-93652400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr1:93647200-93654200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:93647200-93657600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr1:93647200-93658000	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr1:93647200-93660400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:93647200-93660400	Weak transcription	Thymus	Thymus
14	chr1:93647200-93660800	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr1:93647200-93661400	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr1:93647200-93664200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr1:93647200-93664200	Weak transcription	Fetal Intestine Small	intestine
18	chr1:93647200-93664400	Weak transcription	Fetal Muscle Leg	muscle
19	chr1:93647200-93664600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr1:93647200-93664600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr1:93647200-93667600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr1:93647200-93667600	Weak transcription	Adipose Nuclei	Adipose
23	chr1:93647200-93668200	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr1:93647200-93681200	Weak transcription	HUVEC	blood vessel
25	chr1:93647200-93684400	Weak transcription	NH-A	brain
26	chr1:93647200-93685000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr1:93647200-93707400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr1:93647200-93757600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr1:93647400-93659000	Weak transcription	HSMM	muscle
30	chr1:93647400-93661000	Weak transcription	Fetal Muscle Trunk	muscle
31	chr1:93647400-93664800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr1:93647400-93667400	Weak transcription	Duodenum Mucosa	Duodenum
33	chr1:93647600-93652000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr1:93647600-93654400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr1:93647600-93657600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr1:93647600-93657800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr1:93647600-93660400	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr1:93647600-93664400	Weak transcription	NHLF	lung
39	chr1:93647600-93670400	Weak transcription	Liver	Liver
40	chr1:93647600-93706600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr1:93647800-93660400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr1:93647800-93665000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr1:93647800-93667800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr1:93648000-93652400	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr1:93648000-93654600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr1:93648000-93657600	Weak transcription	Osteobl	bone
47	chr1:93648000-93658000	Weak transcription	Primary T cells from cord blood	blood
48	chr1:93648000-93660000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr1:93648200-93654400	Enhancers	Primary hematopoietic stem cells short term culture	blood
50	chr1:93648200-93656400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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