Variant report

Variant	rs10004034
Chromosome Location	chr4:107149886-107149887
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10017707	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10025668	0.83[ASN][1000 genomes]
rs10155346	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10516530	0.98[ASN][1000 genomes]
rs10516531	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11097923	1.00[ASN][1000 genomes]
rs1134648	0.95[ASN][1000 genomes]
rs11936196	0.90[ASN][1000 genomes]
rs11938792	1.00[ASN][1000 genomes]
rs12508029	0.96[ASN][1000 genomes]
rs12512475	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17036581	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1988966	0.90[ASN][1000 genomes]
rs2212969	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2691805	0.95[ASN][1000 genomes]
rs2691806	0.95[ASN][1000 genomes]
rs2728176	0.95[ASN][1000 genomes]
rs2728177	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28418378	0.83[ASN][1000 genomes]
rs28600991	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2949626	0.94[ASN][1000 genomes]
rs2949649	0.88[ASN][1000 genomes]
rs2949651	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3018057	0.88[ASN][1000 genomes]
rs3018059	0.94[ASN][1000 genomes]
rs3018067	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3109950	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3109951	0.94[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3109952	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3109954	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3109956	0.95[ASN][1000 genomes]
rs3109959	0.96[ASN][1000 genomes]
rs3113246	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3113251	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3133167	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3133172	0.95[ASN][1000 genomes]
rs3133173	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs34305991	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34909190	0.91[ASN][1000 genomes]
rs34923623	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4415033	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4441824	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4533833	0.91[ASN][1000 genomes]
rs4560491	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4582218	0.99[ASN][1000 genomes]
rs57983950	0.99[ASN][1000 genomes]
rs6533241	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533244	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6836796	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6848855	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6853347	0.90[ASN][1000 genomes]
rs72960673	0.85[ASN][1000 genomes]
rs7442226	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7669347	0.84[ASN][1000 genomes]
rs7677394	0.99[ASN][1000 genomes]
rs7680756	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7694217	1.00[ASN][1000 genomes]
rs9884121	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9991203	0.83[ASN][1000 genomes]
rs9993259	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879701	chr4:107024776-107163128	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv879702	chr4:107065718-107175191	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv879703	chr4:107082926-107163128	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv879704	chr4:107095901-107212966	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:107066400-107151200	Weak transcription	Colon Smooth Muscle	Colon
2	chr4:107071800-107176400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr4:107083200-107173400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr4:107083800-107164800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:107085000-107150000	Weak transcription	Dnd41	blood
6	chr4:107085400-107169600	Weak transcription	Fetal Kidney	kidney
7	chr4:107088400-107166400	Weak transcription	K562	blood
8	chr4:107105000-107169600	Weak transcription	Fetal Brain Female	brain
9	chr4:107106800-107176400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr4:107111800-107160200	Weak transcription	NHEK	skin
11	chr4:107112400-107170400	Weak transcription	Thymus	Thymus
12	chr4:107113000-107150800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr4:107113000-107154800	Weak transcription	Brain Angular Gyrus	brain
14	chr4:107113400-107150200	Weak transcription	Osteobl	bone
15	chr4:107114600-107236000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr4:107114800-107150400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr4:107114800-107151000	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr4:107114800-107154000	Weak transcription	Brain Anterior Caudate	brain
19	chr4:107114800-107154200	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr4:107114800-107170400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr4:107115000-107150400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr4:107115000-107176400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr4:107116800-107193800	Weak transcription	Small Intestine	intestine
24	chr4:107128200-107176400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr4:107128400-107176400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr4:107130000-107181200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr4:107130200-107150800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr4:107130200-107155400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr4:107130200-107164800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr4:107130200-107164800	Weak transcription	Ovary	ovary
31	chr4:107130200-107176400	Weak transcription	Esophagus	oesophagus
32	chr4:107130200-107176400	Weak transcription	Fetal Stomach	stomach
33	chr4:107130200-107176400	Weak transcription	Lung	lung
34	chr4:107130200-107176600	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr4:107130400-107155400	Weak transcription	Fetal Muscle Leg	muscle
36	chr4:107130400-107176400	Weak transcription	Pancreas	Pancrea
37	chr4:107130600-107176400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr4:107133600-107150000	Weak transcription	Fetal Lung	lung
39	chr4:107134000-107151400	Weak transcription	HepG2	liver
40	chr4:107134000-107153000	Weak transcription	HUVEC	blood vessel
41	chr4:107134200-107154200	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr4:107134400-107150000	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chr4:107134400-107150000	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr4:107140400-107150000	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr4:107140600-107154200	Weak transcription	Brain Substantia Nigra	brain
46	chr4:107141600-107150200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr4:107141600-107176400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr4:107141600-107176400	Weak transcription	Aorta	Aorta
49	chr4:107141600-107214800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr4:107141800-107150000	Weak transcription	GM12878-XiMat	blood

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