Variant report

Variant	rs73409876
Chromosome Location	chr15:55530462-55530463
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:55529763..55532078-chr15:55535534..55537821,2	K562	blood:
2	chr15:55528685..55531049-chr15:55537192..55539121,2	MCF-7	breast:
3	chr15:55524517..55526709-chr15:55528227..55531220,3	MCF-7	breast:
4	chr15:55527813..55534361-chr15:55567580..55576356,11	K562	blood:
5	chr15:55528122..55530871-chr15:55531948..55534527,2	MCF-7	breast:
6	chr15:55510048..55513584-chr15:55529255..55531820,4	K562	blood:
7	chr15:55528450..55530631-chr15:55610596..55613298,2	K562	blood:
8	chr15:55528399..55531795-chr15:55570084..55572608,4	K562	blood:
9	chr15:55529753..55531504-chr15:55533201..55534943,2	K562	blood:
10	chr15:55513816..55516260-chr15:55529829..55531685,2	K562	blood:
11	chr15:55529177..55531366-chr15:55559639..55562184,2	K562	blood:
12	chr15:55529333..55531848-chr15:55546495..55549479,2	K562	blood:
13	chr15:55520811..55529435-chr15:55529925..55534726,12	K562	blood:
14	chr15:55526980..55531263-chr15:55533201..55537499,6	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RSL24D1-2	chr15:55530316-55530689	NONHSAT043984

No data

Variant related genes	Relation type
ENSG00000069943	Chromatin interaction
ENSG00000069974	Chromatin interaction
ENSG00000225973	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs56746534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56798386	1.00[AFR][1000 genomes]
rs57608309	1.00[AFR][1000 genomes]
rs58042388	1.00[AFR][1000 genomes]
rs58080368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58797842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59474172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61476959	1.00[AFR][1000 genomes]
rs73409874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73409875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73409878	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73409880	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73409881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73409882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73409884	1.00[AFR][1000 genomes]
rs73409885	1.00[AFR][1000 genomes]
rs73409886	0.85[AFR][1000 genomes]
rs73409891	1.00[AFR][1000 genomes]
rs73413613	1.00[AFR][1000 genomes]
rs73413616	1.00[AFR][1000 genomes]
rs73413619	1.00[AFR][1000 genomes]
rs73413627	1.00[AFR][1000 genomes]
rs73413629	1.00[AFR][1000 genomes]
rs73413634	1.00[AFR][1000 genomes]
rs74015534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8030426	1.00[AFR][1000 genomes]
rs8039960	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043176	chr15:55010228-55563000	Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1039471	chr15:55137606-55552555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
5	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
6	nsv1049977	chr15:55502508-55555694	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1036924	chr15:55527874-55616480	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv1051046	chr15:55529291-55821973	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55489800-55540200	Weak transcription	Esophagus	oesophagus
2	chr15:55490000-55562800	Weak transcription	Ovary	ovary
3	chr15:55509400-55541600	Weak transcription	Small Intestine	intestine
4	chr15:55512800-55541600	Weak transcription	Colonic Mucosa	Colon
5	chr15:55513400-55532400	Weak transcription	Left Ventricle	heart
6	chr15:55514200-55532000	Weak transcription	Lung	lung
7	chr15:55514200-55532600	Weak transcription	Psoas Muscle	Psoas
8	chr15:55514200-55540400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:55514200-55545200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr15:55514400-55541200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr15:55514600-55534200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:55514600-55542600	Weak transcription	Hela-S3	cervix
13	chr15:55514600-55543200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr15:55514800-55532600	Weak transcription	Adipose Nuclei	Adipose
15	chr15:55514800-55539800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr15:55514800-55560400	Weak transcription	Spleen	Spleen
17	chr15:55516000-55559600	Weak transcription	Fetal Stomach	stomach
18	chr15:55517600-55542800	Weak transcription	Thymus	Thymus
19	chr15:55517800-55532400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr15:55517800-55539600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr15:55517800-55542200	Weak transcription	Fetal Thymus	thymus
22	chr15:55517800-55542800	Weak transcription	Primary B cells from peripheral blood	blood
23	chr15:55518000-55539200	Weak transcription	Fetal Lung	lung
24	chr15:55518600-55533600	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr15:55518600-55539400	Weak transcription	Placenta	Placenta
26	chr15:55518800-55541200	Weak transcription	Aorta	Aorta
27	chr15:55520800-55574800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr15:55521000-55541400	Weak transcription	Fetal Intestine Large	intestine
29	chr15:55522400-55532400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr15:55522800-55532400	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr15:55522800-55532600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr15:55522800-55534200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:55522800-55540600	Weak transcription	Liver	Liver
34	chr15:55522800-55543200	Weak transcription	Pancreas	Pancrea
35	chr15:55522800-55547000	Weak transcription	GM12878-XiMat	blood
36	chr15:55523200-55542600	Weak transcription	HMEC	breast
37	chr15:55523600-55533200	Weak transcription	Primary hematopoietic stem cells	blood
38	chr15:55524000-55531800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr15:55525400-55531800	Weak transcription	Gastric	stomach
40	chr15:55526600-55531600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr15:55526800-55537200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr15:55526800-55543200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr15:55527000-55532000	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr15:55527000-55532400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr15:55527000-55534600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr15:55527000-55542400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr15:55527000-55544200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr15:55527200-55530600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr15:55527200-55531800	Weak transcription	Primary T cells fromperipheralblood	blood
50	chr15:55527200-55538800	Weak transcription	Primary B cells from cord blood	blood

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