Variant report

Variant	rs59463879
Chromosome Location	chr3:45990928-45990929
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs2373091	1.00[AMR][1000 genomes]
rs35678722	1.00[AMR][1000 genomes]
rs58248472	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59551829	1.00[AMR][1000 genomes]
rs60514862	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60663814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61630411	1.00[AMR][1000 genomes]
rs6798465	1.00[AMR][1000 genomes]
rs6806198	1.00[AMR][1000 genomes]
rs72884905	1.00[AMR][1000 genomes]
rs72884920	1.00[AMR][1000 genomes]
rs7619090	1.00[AMR][1000 genomes]
rs7631934	1.00[AFR][1000 genomes];1.00[AMR][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv876736	chr3:45900621-46027410	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45959400-46009800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:45973800-45991400	Weak transcription	Brain Germinal Matrix	brain
3	chr3:45978800-45994400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:45979000-45993000	Weak transcription	Stomach Mucosa	stomach
5	chr3:45980800-46013400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:45981000-45993400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:45981000-45999400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr3:45981600-46025000	Strong transcription	Fetal Intestine Large	intestine
9	chr3:45982200-45999800	Strong transcription	Stomach Smooth Muscle	stomach
10	chr3:45982800-46000800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:45983200-46012400	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr3:45984000-45994000	Weak transcription	HMEC	breast
13	chr3:45984200-45994200	Strong transcription	Liver	Liver
14	chr3:45984400-45998200	Strong transcription	Left Ventricle	heart
15	chr3:45984400-46000800	Weak transcription	Psoas Muscle	Psoas
16	chr3:45986200-45993800	Strong transcription	Adipose Nuclei	Adipose
17	chr3:45986200-45998200	Strong transcription	Brain Substantia Nigra	brain
18	chr3:45986200-46006800	Strong transcription	Fetal Intestine Small	intestine
19	chr3:45986200-46007600	Strong transcription	Fetal Stomach	stomach
20	chr3:45986400-45991400	Strong transcription	Right Ventricle	heart
21	chr3:45986400-45997000	Strong transcription	Pancreas	Pancrea
22	chr3:45986400-45997200	Strong transcription	Brain Inferior Temporal Lobe	brain
23	chr3:45986400-46001400	Weak transcription	A549	lung
24	chr3:45986400-46006200	Strong transcription	Fetal Muscle Leg	muscle
25	chr3:45986400-46006800	Strong transcription	Fetal Muscle Trunk	muscle
26	chr3:45986400-46007600	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr3:45986400-46012200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr3:45986400-46026600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:45986600-45991000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr3:45986600-45992000	Strong transcription	Gastric	stomach
31	chr3:45986600-45997000	Strong transcription	H9 Cell Line	embryonic stem cell
32	chr3:45986600-45997000	Strong transcription	Brain Angular Gyrus	brain
33	chr3:45986600-45997400	Strong transcription	Brain Cingulate Gyrus	brain
34	chr3:45986600-46009000	Strong transcription	Primary B cells from cord blood	blood
35	chr3:45986600-46012000	Strong transcription	Primary monocytes fromperipheralblood	blood
36	chr3:45986600-46026800	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr3:45986800-46012200	Strong transcription	Primary B cells from peripheral blood	blood
38	chr3:45987000-45997600	Strong transcription	Cortex derived primary cultured neurospheres	brain
39	chr3:45987200-45991000	Strong transcription	Colonic Mucosa	Colon
40	chr3:45987200-46013600	Strong transcription	Primary hematopoietic stem cells	blood
41	chr3:45987200-46027200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:45987400-46026600	Strong transcription	HUES6 Cell Line	embryonic stem cell
43	chr3:45987600-45991000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr3:45987600-45993600	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
45	chr3:45987600-45998200	Genic enhancers	Primary T cells fromperipheralblood	blood
46	chr3:45987600-46002000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
47	chr3:45987600-46007800	Strong transcription	K562	blood
48	chr3:45987800-45995600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
49	chr3:45987800-45997400	Strong transcription	Brain Anterior Caudate	brain
50	chr3:45987800-45997600	Strong transcription	Brain Hippocampus Middle	brain

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