Variant report

Variant	rs73822579
Chromosome Location	chr3:28359933-28359934
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:28338220..28341133-chr3:28359102..28361875,2	K562	blood:
2	chr3:28303255..28306157-chr3:28357990..28360195,2	K562	blood:
3	chr3:28359320..28360886-chr3:28367383..28369282,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CMC1-3	chr3:28357824-28361253	NONHSAT088780

Variant related genes	Relation type
ENSG00000187118	Chromatin interaction
ENSG00000163512	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11916224	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs55962685	0.87[AFR][1000 genomes]
rs60023459	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs61588415	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6804419	0.87[AFR][1000 genomes]
rs73825125	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73825129	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73825132	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73825133	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73825137	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73825138	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73825141	0.85[AFR][1000 genomes]
rs7628073	0.87[AFR][1000 genomes];0.85[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	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28314400-28365400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:28315000-28363000	Weak transcription	A549	lung
3	chr3:28317600-28380000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr3:28317600-28389400	Weak transcription	Esophagus	oesophagus
5	chr3:28326400-28365400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr3:28332800-28360000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:28332800-28360200	Weak transcription	Left Ventricle	heart
8	chr3:28332800-28360400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:28332800-28362400	Weak transcription	Primary B cells from cord blood	blood
10	chr3:28332800-28365200	Weak transcription	HSMMtube	muscle
11	chr3:28332800-28365400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:28337200-28365200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:28337400-28360400	Weak transcription	Liver	Liver
14	chr3:28337400-28361000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr3:28337400-28363000	Weak transcription	GM12878-XiMat	blood
16	chr3:28337600-28360200	Weak transcription	Fetal Lung	lung
17	chr3:28337600-28360200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr3:28337600-28361000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:28338000-28360200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr3:28338000-28360600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:28338200-28364000	Weak transcription	Primary hematopoietic stem cells	blood
22	chr3:28343800-28383800	Weak transcription	Aorta	Aorta
23	chr3:28347400-28360000	Weak transcription	Fetal Intestine Large	intestine
24	chr3:28348600-28360000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr3:28348600-28365200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr3:28349000-28365400	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr3:28349400-28364200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr3:28349400-28365600	Weak transcription	Psoas Muscle	Psoas
29	chr3:28349600-28365400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr3:28349800-28389400	Weak transcription	Gastric	stomach
31	chr3:28350000-28363800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr3:28350000-28376800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr3:28350200-28361600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:28350400-28365400	Weak transcription	Colon Smooth Muscle	Colon
35	chr3:28350600-28360200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr3:28351200-28366600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr3:28351400-28365600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr3:28351400-28366800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr3:28352800-28360000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:28353200-28360200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:28354200-28364600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:28354800-28363000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr3:28354800-28365600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr3:28355200-28360600	Weak transcription	Primary monocytes fromperipheralblood	blood
45	chr3:28356000-28361400	Weak transcription	NHDF-Ad	bronchial
46	chr3:28356000-28364000	Weak transcription	Brain Substantia Nigra	brain
47	chr3:28356800-28376800	Weak transcription	Ovary	ovary
48	chr3:28357200-28365600	Weak transcription	Colonic Mucosa	Colon
49	chr3:28357400-28360200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr3:28357400-28366200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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