Variant report

Variant	rs28573838
Chromosome Location	chr15:72620825-72620826
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:72620558..72623248-chr15:72976399..72978896,2	K562	blood:

Variant related genes	Relation type
ENSG00000140463	Chromatin interaction
ENSG00000175202	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12324592	0.94[AMR][1000 genomes]
rs12899442	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12903882	0.94[AMR][1000 genomes]
rs12917402	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28488862	0.94[AMR][1000 genomes]
rs2912203	0.82[EUR][1000 genomes]
rs2912204	0.82[EUR][1000 genomes]
rs2912215	0.82[EUR][1000 genomes]
rs2912222	0.82[EUR][1000 genomes]
rs2912224	0.82[EUR][1000 genomes]
rs2912225	0.82[EUR][1000 genomes]
rs2959916	0.82[EUR][1000 genomes]
rs2959917	0.82[EUR][1000 genomes]
rs2959918	0.82[EUR][1000 genomes]
rs2959919	0.82[EUR][1000 genomes]
rs2959923	0.82[EUR][1000 genomes]
rs2959924	0.82[EUR][1000 genomes]
rs2959927	0.82[EUR][1000 genomes]
rs2959929	0.82[EUR][1000 genomes]
rs2959931	0.82[EUR][1000 genomes]
rs2959933	0.82[EUR][1000 genomes]
rs2959935	0.82[EUR][1000 genomes]
rs2959940	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34511502	0.82[EUR][1000 genomes]
rs34538801	0.82[EUR][1000 genomes]
rs35457238	0.82[EUR][1000 genomes]
rs4776592	0.82[ASN][1000 genomes]
rs4776593	0.82[ASN][1000 genomes]
rs4777501	0.82[ASN][1000 genomes]
rs71411063	0.82[EUR][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	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
3	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72609800-72624800	Weak transcription	HepG2	liver
2	chr15:72613000-72631600	Weak transcription	Right Atrium	heart
3	chr15:72613000-72636000	Weak transcription	Right Ventricle	heart
4	chr15:72613000-72636400	Weak transcription	Gastric	stomach
5	chr15:72613000-72637000	Weak transcription	Colonic Mucosa	Colon
6	chr15:72613200-72630600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr15:72613200-72630600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:72613200-72630800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr15:72613200-72631600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr15:72613200-72633000	Weak transcription	Thymus	Thymus
11	chr15:72613200-72633600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr15:72613200-72634200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr15:72613200-72635600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr15:72613200-72635800	Weak transcription	Pancreas	Pancrea
15	chr15:72613200-72636000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr15:72613200-72636200	Weak transcription	HSMMtube	muscle
17	chr15:72613200-72651000	Weak transcription	Stomach Mucosa	stomach
18	chr15:72613200-72666800	Weak transcription	Fetal Heart	heart
19	chr15:72613400-72623000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr15:72613400-72623600	Weak transcription	NHLF	lung
21	chr15:72613400-72627400	Weak transcription	NHDF-Ad	bronchial
22	chr15:72613400-72629200	Weak transcription	Brain Anterior Caudate	brain
23	chr15:72613400-72630000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:72613400-72630000	Weak transcription	Brain Angular Gyrus	brain
25	chr15:72613400-72630200	Weak transcription	Fetal Brain Male	brain
26	chr15:72613400-72631000	Weak transcription	Hela-S3	cervix
27	chr15:72613400-72632200	Weak transcription	NH-A	brain
28	chr15:72613400-72633600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr15:72613400-72633600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr15:72613400-72633600	Weak transcription	Fetal Thymus	thymus
31	chr15:72613400-72633600	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr15:72613400-72634000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr15:72613400-72634000	Weak transcription	Spleen	Spleen
34	chr15:72613400-72634400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr15:72613400-72635800	Weak transcription	Duodenum Mucosa	Duodenum
36	chr15:72613400-72636600	Weak transcription	HSMM	muscle
37	chr15:72613400-72638000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr15:72613400-72667600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr15:72613800-72634000	Weak transcription	Fetal Brain Female	brain
40	chr15:72613800-72636400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr15:72614000-72630800	Weak transcription	Ovary	ovary
42	chr15:72614000-72636200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr15:72614000-72636400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr15:72614000-72642400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:72616600-72627200	Weak transcription	Primary B cells from peripheral blood	blood
46	chr15:72616800-72633600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr15:72617000-72633400	Weak transcription	GM12878-XiMat	blood
48	chr15:72617200-72630000	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr15:72617600-72630200	Weak transcription	Primary T cells from cord blood	blood
50	chr15:72618000-72623400	Strong transcription	Fetal Intestine Small	intestine

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