Variant report

Variant	rs7896659
Chromosome Location	chr10:99449124-99449125
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:99449116-99449953	U87	brain:	n/a	n/a
2	POLR2A	chr10:99449110-99449953	U87	brain:	n/a	n/a
3	POLR2A	chr10:99449120-99449910	Hela-S3	cervix:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99446145..99449629-chr10:99495749..99499452,3	K562	blood:
2	chr10:99445750..99450066-chr10:99494053..99497713,5	MCF-7	breast:
3	chr10:99446264..99449966-chr10:99495266..99498485,3	MCF-7	breast:
4	chr10:99399087..99401527-chr10:99446729..99449313,3	MCF-7	breast:
5	chr10:99443080..99453237-chr10:99471420..99478243,12	MCF-7	breast:

No data

Variant related genes	Relation type
AVPI1	TF binding region
ENSG00000155252	Chromatin interaction
ENSG00000155254	Chromatin interaction
ENSG00000155256	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10882990	0.85[EUR][1000 genomes]
rs11189328	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11189331	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12218718	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61863305	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7908082	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7908350	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7922721	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9787703	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][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	esv1817777	chr10:99196035-99558169	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv1045292	chr10:99411153-99450861	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99447000-99449400	Weak transcription	Gastric	stomach
2	chr10:99447000-99451200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:99447200-99449400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr10:99447600-99449200	Enhancers	NHEK	skin
5	chr10:99447600-99449400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr10:99447600-99449800	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr10:99447600-99450200	Enhancers	Placenta	Placenta
8	chr10:99447600-99451000	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr10:99447600-99451000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr10:99447600-99451000	Enhancers	HMEC	breast
11	chr10:99447800-99449200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:99447800-99449200	Weak transcription	Esophagus	oesophagus
13	chr10:99447800-99449800	Enhancers	Lung	lung
14	chr10:99447800-99450200	Enhancers	NH-A	brain
15	chr10:99447800-99451000	Enhancers	NHDF-Ad	bronchial
16	chr10:99447800-99451000	Enhancers	NHLF	lung
17	chr10:99448000-99449400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:99448000-99450200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:99448000-99450200	Enhancers	HSMMtube	muscle
20	chr10:99448000-99450400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:99448000-99450400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr10:99448000-99450400	Enhancers	Osteobl	bone
23	chr10:99448000-99452000	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr10:99448200-99449600	Enhancers	Brain Hippocampus Middle	brain
25	chr10:99448200-99450200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr10:99448200-99450400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr10:99448200-99451000	Enhancers	HSMM	muscle
28	chr10:99448200-99451200	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr10:99448200-99452200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr10:99448400-99449400	Weak transcription	Left Ventricle	heart
31	chr10:99448400-99449400	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr10:99448400-99449400	Weak transcription	Right Atrium	heart
33	chr10:99448400-99449600	Weak transcription	Duodenum Mucosa	Duodenum
34	chr10:99448400-99449800	Enhancers	HepG2	liver
35	chr10:99448400-99450200	Enhancers	K562	blood
36	chr10:99448400-99450400	Enhancers	Muscle Satellite Cultured Cells	--
37	chr10:99448400-99450400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr10:99448400-99451400	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr10:99448600-99449200	Enhancers	Hela-S3	cervix
40	chr10:99448600-99449600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr10:99448600-99450400	Enhancers	A549	lung
42	chr10:99448600-99451200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr10:99448600-99456200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr10:99448600-99457800	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr10:99448800-99449200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr10:99448800-99449200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr10:99448800-99449200	Weak transcription	Brain Cingulate Gyrus	brain
48	chr10:99448800-99449400	Weak transcription	Brain Angular Gyrus	brain
49	chr10:99448800-99449400	Weak transcription	Fetal Muscle Leg	muscle
50	chr10:99449000-99450400	Enhancers	Stomach Mucosa	stomach

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