Variant report

Variant	rs59427401
Chromosome Location	chr3:101113993-101113994
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs55699383	0.85[AFR][1000 genomes]
rs56214693	1.00[AFR][1000 genomes]
rs57510745	0.85[AFR][1000 genomes]
rs59131372	1.00[AFR][1000 genomes]
rs60283430	0.85[AFR][1000 genomes]
rs60475301	0.81[AFR][1000 genomes]
rs61050107	0.85[AFR][1000 genomes]
rs61256299	1.00[AFR][1000 genomes]
rs73862803	0.85[AFR][1000 genomes]
rs73862805	0.85[AFR][1000 genomes]
rs73863046	0.85[AFR][1000 genomes]
rs73863071	1.00[AFR][1000 genomes]
rs73863078	1.00[AFR][1000 genomes]
rs73863126	0.85[AFR][1000 genomes]
rs73863128	0.85[AFR][1000 genomes]
rs73865603	1.00[AFR][1000 genomes]
rs73865636	0.85[AFR][1000 genomes]
rs73865639	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv3439278	chr3:100936513-101162102	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1003475	chr3:101005238-101120030	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101085600-101137600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:101099000-101114600	Weak transcription	K562	blood
3	chr3:101106600-101114600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr3:101106800-101133000	Weak transcription	Left Ventricle	heart
5	chr3:101106800-101133000	Weak transcription	Pancreas	Pancrea
6	chr3:101106800-101133000	Weak transcription	Spleen	Spleen
7	chr3:101107000-101114000	Weak transcription	Fetal Thymus	thymus
8	chr3:101107000-101118600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr3:101107000-101140800	Weak transcription	Esophagus	oesophagus
10	chr3:101107200-101133000	Weak transcription	Gastric	stomach
11	chr3:101107200-101133000	Weak transcription	Thymus	Thymus
12	chr3:101107200-101161200	Weak transcription	Aorta	Aorta
13	chr3:101108600-101114600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr3:101108600-101114600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr3:101108600-101116400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr3:101108600-101119400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr3:101108600-101138000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:101109400-101133600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:101109800-101127000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr3:101110200-101114200	ZNF genes & repeats	Primary T cells from cord blood	blood
21	chr3:101110400-101123800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr3:101110600-101124000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr3:101110800-101132400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr3:101111000-101115600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:101111600-101138000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr3:101111600-101145800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:101111800-101114000	Weak transcription	Dnd41	blood
28	chr3:101111800-101119000	Weak transcription	Liver	Liver
29	chr3:101111800-101123800	Weak transcription	Lung	lung
30	chr3:101111800-101134800	Weak transcription	Stomach Smooth Muscle	stomach
31	chr3:101112000-101114200	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr3:101112000-101125400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:101112200-101115000	ZNF genes & repeats	Fetal Lung	lung
34	chr3:101112200-101119000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr3:101112400-101115000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
36	chr3:101112600-101114000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr3:101112600-101121800	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr3:101112800-101119600	Weak transcription	Ovary	ovary
39	chr3:101113000-101115000	Weak transcription	Fetal Brain Male	brain
40	chr3:101113000-101116600	Strong transcription	Primary hematopoietic stem cells	blood
41	chr3:101113000-101116800	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr3:101113000-101117800	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr3:101113400-101117800	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr3:101113600-101114200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr3:101113600-101114200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr3:101113600-101114600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr3:101113600-101114600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr3:101113600-101114800	ZNF genes & repeats	Primary B cells from cord blood	blood
49	chr3:101113600-101115200	ZNF genes & repeats	Fetal Muscle Leg	muscle
50	chr3:101113600-101116400	Strong transcription	Primary T helper cells PMA-I stimulated	--

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