Variant report

Variant	rs28588522
Chromosome Location	chr7:5735353-5735354
allele	A/G
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:5569027..5572028-chr7:5733095..5735876,3	MCF-7	breast:
2	chr7:5732435..5735665-chr7:5735782..5737442,3	K562	blood:
3	chr7:5645477..5648196-chr7:5732391..5735372,2	K562	blood:
4	chr7:5734531..5737530-chr7:5742995..5745148,2	K562	blood:
5	chr7:5727662..5730125-chr7:5733437..5735543,2	MCF-7	breast:
6	chr7:5734503..5737746-chr7:5737831..5742522,7	MCF-7	breast:
7	chr7:5597370..5600329-chr7:5734378..5736141,2	MCF-7	breast:
8	chr7:5733734..5736608-chr7:5749498..5751681,2	K562	blood:
9	chr7:5465182..5466717-chr7:5734558..5737201,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000272953	Chromatin interaction
ENSG00000075624	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10230002	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10242141	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10276132	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10280662	0.90[AFR][1000 genomes]
rs10441129	0.81[AFR][1000 genomes]
rs28411680	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28418908	1.00[AMR][1000 genomes]
rs28446539	1.00[AMR][1000 genomes]
rs28578361	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28720074	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58469547	1.00[AMR][1000 genomes]
rs6950757	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6964579	0.82[AFR][1000 genomes]
rs6968103	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73338077	0.88[AFR][1000 genomes]
rs73338095	0.88[AFR][1000 genomes]
rs73338096	1.00[AMR][1000 genomes]
rs73341621	1.00[AMR][1000 genomes]
rs73341623	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73341624	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869165	chr7:4889618-5799719	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	352 gene(s)	inside rSNPs	diseases
2	nsv530979	chr7:5101631-5864814	Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	350 gene(s)	inside rSNPs	diseases
3	nsv530981	chr7:5157150-5920006	Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	348 gene(s)	inside rSNPs	diseases
4	nsv530983	chr7:5370746-6070852	Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	368 gene(s)	inside rSNPs	diseases
5	nsv916391	chr7:5417945-5889565	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer 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	336 gene(s)	inside rSNPs	diseases
6	nsv533108	chr7:5488018-6316581	Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	390 gene(s)	inside rSNPs	diseases
7	nsv482449	chr7:5557585-5743673	Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	294 gene(s)	inside rSNPs	diseases
8	nsv1033556	chr7:5565080-6186815	Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	357 gene(s)	inside rSNPs	diseases
9	nsv538710	chr7:5565080-6186815	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	357 gene(s)	inside rSNPs	diseases
10	nsv530467	chr7:5617816-5815082	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
11	nsv1017612	chr7:5629728-5819144	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
12	nsv1021989	chr7:5629728-6186815	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer 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	126 gene(s)	inside rSNPs	diseases
13	nsv887417	chr7:5667645-5760860	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
14	nsv887418	chr7:5675305-5772551	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
15	nsv887419	chr7:5703669-5820383	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
16	nsv1028652	chr7:5706207-5769489	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
17	nsv830891	chr7:5726301-5895460	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 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	chr7:5718400-5735600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr7:5720200-5741400	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr7:5723000-5740800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr7:5723400-5740600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr7:5723400-5766400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr7:5723600-5740600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr7:5726000-5737000	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr7:5728600-5736600	Enhancers	Pancreas	Pancrea
9	chr7:5728600-5738200	Enhancers	Placenta	Placenta
10	chr7:5730000-5740400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr7:5730200-5735600	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr7:5730200-5736400	Flanking Active TSS	Colon Smooth Muscle	Colon
13	chr7:5730200-5736600	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr7:5730200-5738200	Enhancers	Ovary	ovary
15	chr7:5730400-5735600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr7:5730400-5735800	Enhancers	Psoas Muscle	Psoas
17	chr7:5730400-5737000	Enhancers	Liver	Liver
18	chr7:5731000-5735600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr7:5731200-5735800	Flanking Active TSS	NH-A	brain
20	chr7:5731400-5735600	Flanking Active TSS	GM12878-XiMat	blood
21	chr7:5731400-5740800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr7:5731600-5736800	Enhancers	Spleen	Spleen
23	chr7:5731800-5735600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
24	chr7:5731800-5735800	Flanking Active TSS	Primary B cells from cord blood	blood
25	chr7:5731800-5737000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr7:5731800-5737000	Enhancers	Primary hematopoietic stem cells	blood
27	chr7:5732000-5735600	Flanking Active TSS	Fetal Stomach	stomach
28	chr7:5732000-5740600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr7:5732000-5741000	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr7:5732200-5735800	Flanking Active TSS	HSMMtube	muscle
31	chr7:5732200-5735800	Flanking Active TSS	NHDF-Ad	bronchial
32	chr7:5732200-5735800	Flanking Active TSS	Osteobl	bone
33	chr7:5732400-5735800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr7:5732400-5736800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr7:5732600-5735400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr7:5732600-5735400	Active TSS	Aorta	Aorta
37	chr7:5732600-5735600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
38	chr7:5732600-5735800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
39	chr7:5732600-5747600	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr7:5732800-5735400	Weak transcription	Fetal Brain Female	brain
41	chr7:5732800-5735800	Flanking Active TSS	Primary T cells from cord blood	blood
42	chr7:5732800-5736000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
43	chr7:5733000-5736000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
44	chr7:5733000-5736000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
45	chr7:5733200-5735400	Weak transcription	Hela-S3	cervix
46	chr7:5733400-5735600	Flanking Active TSS	Primary B cells from peripheral blood	blood
47	chr7:5733400-5735600	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
48	chr7:5733400-5735600	Enhancers	Fetal Kidney	kidney
49	chr7:5733400-5736800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
50	chr7:5733400-5740800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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