Variant report

Variant	rs16860875
Chromosome Location	chr3:113083173-113083174
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:28)

rs_ID	r²[population]
rs11917869	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11919091	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11920233	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11920468	1.00[AMR][1000 genomes]
rs11920795	1.00[AMR][1000 genomes]
rs11921249	1.00[AMR][1000 genomes]
rs11922003	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11924899	1.00[AMR][1000 genomes]
rs11925633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11926656	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1463639	0.87[YRI][hapmap]
rs16845109	0.87[YRI][hapmap]
rs16845110	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs16860700	1.00[AMR][1000 genomes]
rs16860716	1.00[AMR][1000 genomes]
rs16860732	1.00[AMR][1000 genomes]
rs16860748	0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs16860752	1.00[AMR][1000 genomes]
rs16860782	1.00[AMR][1000 genomes]
rs16860800	1.00[AMR][1000 genomes]
rs16860854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16860995	0.87[YRI][hapmap]
rs16861019	1.00[AMR][1000 genomes]
rs16861059	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs16861115	1.00[AMR][1000 genomes]
rs4082653	1.00[AMR][1000 genomes]
rs7430385	0.91[AFR][1000 genomes];1.00[AMR][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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113036800-113088600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr3:113042200-113116800	Weak transcription	Primary B cells from cord blood	blood
3	chr3:113042400-113103600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:113045400-113097600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:113066200-113102800	Weak transcription	Aorta	Aorta
6	chr3:113066400-113099000	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:113066400-113117600	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:113067600-113094400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr3:113068400-113117000	Weak transcription	Thymus	Thymus
10	chr3:113069000-113101800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:113069400-113088400	Weak transcription	Fetal Intestine Small	intestine
12	chr3:113070600-113099000	Weak transcription	Adipose Nuclei	Adipose
13	chr3:113070800-113087000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:113071400-113083200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr3:113072200-113096800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:113072400-113117200	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr3:113072800-113088600	Weak transcription	Spleen	Spleen
18	chr3:113073800-113085400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:113074400-113184400	Weak transcription	Hela-S3	cervix
20	chr3:113077800-113102400	Weak transcription	HSMM	muscle
21	chr3:113078600-113109800	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:113079800-113084200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr3:113080000-113083600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:113080000-113114200	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr3:113080000-113123800	Weak transcription	Primary B cells from peripheral blood	blood
26	chr3:113080200-113085000	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr3:113080200-113117600	Weak transcription	Psoas Muscle	Psoas
28	chr3:113080800-113143800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr3:113081600-113083600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr3:113081600-113083600	Weak transcription	Fetal Intestine Large	intestine
31	chr3:113081600-113084600	Weak transcription	Liver	Liver
32	chr3:113081600-113085400	Weak transcription	Fetal Stomach	stomach
33	chr3:113081600-113096800	Weak transcription	Primary T cells from cord blood	blood
34	chr3:113081600-113099000	Weak transcription	Left Ventricle	heart
35	chr3:113081600-113103400	Weak transcription	Duodenum Mucosa	Duodenum
36	chr3:113081600-113104400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:113081600-113105600	Weak transcription	Esophagus	oesophagus
38	chr3:113081600-113105800	Weak transcription	Gastric	stomach
39	chr3:113081600-113106200	Weak transcription	Lung	lung
40	chr3:113081600-113121200	Weak transcription	Ovary	ovary
41	chr3:113081600-113121200	Weak transcription	Pancreas	Pancrea
42	chr3:113081800-113099000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr3:113081800-113116600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:113082200-113094000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr3:113082200-113113200	Weak transcription	Rectal Mucosa Donor 31	rectum

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