Variant report

Variant	rs6782869
Chromosome Location	chr3:69255311-69255312
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs34263064	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34416281	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34511838	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35423263	0.85[AMR][1000 genomes]
rs35461234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35466234	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35530977	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs35860408	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs36022055	0.85[AMR][1000 genomes]
rs4075188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4376041	0.90[EUR][1000 genomes]
rs4582065	0.85[AMR][1000 genomes]
rs4621334	0.85[AMR][1000 genomes]
rs6772387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6776027	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6776243	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6781505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6781739	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6784841	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6785253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6804872	0.84[ASN][1000 genomes]
rs6806528	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73097720	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73097725	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73097726	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73097740	0.85[AMR][1000 genomes]
rs7637015	0.84[ASN][1000 genomes]
rs7640502	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9868056	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3398378	chr3:69240573-69271936	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69232000-69275600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:69242400-69281600	Weak transcription	Brain Germinal Matrix	brain
3	chr3:69242600-69268800	Weak transcription	Spleen	Spleen
4	chr3:69244000-69264800	Weak transcription	Fetal Brain Female	brain
5	chr3:69244200-69261800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:69246200-69266800	Weak transcription	HSMM	muscle
7	chr3:69248200-69257000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:69249000-69255400	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr3:69249000-69263000	Weak transcription	Lung	lung
10	chr3:69249400-69257600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr3:69250000-69258400	Weak transcription	Fetal Thymus	thymus
12	chr3:69250000-69261600	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr3:69250000-69263000	Weak transcription	Fetal Muscle Trunk	muscle
14	chr3:69250000-69269200	Weak transcription	Thymus	Thymus
15	chr3:69250000-69272400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr3:69250000-69281600	Weak transcription	Esophagus	oesophagus
17	chr3:69250200-69255400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:69250200-69255600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr3:69250200-69257600	Weak transcription	Fetal Lung	lung
20	chr3:69250200-69262000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr3:69250200-69262800	Weak transcription	Fetal Stomach	stomach
22	chr3:69250200-69263200	Weak transcription	Dnd41	blood
23	chr3:69250200-69268800	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr3:69250200-69268800	Weak transcription	Ovary	ovary
25	chr3:69250200-69286000	Weak transcription	Colonic Mucosa	Colon
26	chr3:69250400-69260200	Weak transcription	Fetal Muscle Leg	muscle
27	chr3:69250400-69264800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr3:69250400-69268400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr3:69250400-69280000	Weak transcription	Fetal Kidney	kidney
30	chr3:69253000-69255400	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr3:69253000-69266400	Weak transcription	Small Intestine	intestine
32	chr3:69253000-69297600	Weak transcription	Gastric	stomach
33	chr3:69253400-69259800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr3:69253400-69260600	Weak transcription	Fetal Intestine Small	intestine
35	chr3:69253400-69277400	Weak transcription	Left Ventricle	heart
36	chr3:69253600-69255800	Enhancers	GM12878-XiMat	blood
37	chr3:69253600-69256400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr3:69253600-69257000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr3:69253600-69258200	Weak transcription	Liver	Liver
40	chr3:69253600-69258600	Weak transcription	Hela-S3	cervix
41	chr3:69253600-69260400	Weak transcription	Stomach Mucosa	stomach
42	chr3:69253600-69260800	Weak transcription	Brain Anterior Caudate	brain
43	chr3:69253600-69263400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr3:69253600-69266600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr3:69253600-69267600	Weak transcription	Placenta	Placenta
46	chr3:69254000-69258400	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr3:69254000-69258600	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr3:69254000-69260400	Weak transcription	Fetal Intestine Large	intestine
49	chr3:69254000-69260800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr3:69254000-69260800	Weak transcription	Brain Hippocampus Middle	brain

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