Variant report

Variant	rs10828735
Chromosome Location	chr10:25240084-25240085
allele	C/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	chr10:25239865-25243383	GM12878	blood:	n/a	n/a
2	POLR2A	chr10:25239835-25242202	K562	blood:	n/a	n/a
3	CTBP2	chr10:25239941-25242417	H1-hESC	embryonic stem cell:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr10:25010748..25013945-chr10:25238648..25242767,8	MCF-7	breast:
2	chr10:25010212..25016288-chr10:25239162..25243925,7	K562	blood:
3	chr10:25009082..25014020-chr10:25238727..25242865,5	K562	blood:
4	chr10:25239754..25241501-chr10:25279969..25281607,2	K562	blood:
5	chr10:25239628..25245194-chr10:25304841..25307327,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000273107	TF binding region
ENSG00000107863	Chromatin interaction
ENSG00000185875	Chromatin interaction
ENSG00000151023	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11014322	1.00[ASN][1000 genomes]
rs12255703	1.00[JPT][hapmap]
rs12256206	1.00[JPT][hapmap]
rs1409306	1.00[JPT][hapmap]
rs16925145	1.00[JPT][hapmap]
rs2220708	1.00[JPT][hapmap]
rs3808907	1.00[GIH][hapmap]
rs6482453	1.00[JPT][hapmap]
rs6482455	1.00[JPT][hapmap]
rs6482465	1.00[JPT][hapmap]
rs7072126	1.00[JPT][hapmap]
rs7078660	1.00[JPT][hapmap]
rs7084900	1.00[JPT][hapmap]
rs7087994	1.00[JPT][hapmap]
rs7100005	1.00[JPT][hapmap]
rs729141	1.00[JPT][hapmap]
rs73606598	1.00[ASN][1000 genomes]
rs73606601	1.00[ASN][1000 genomes]
rs7910241	1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 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	chr10:25191600-25240600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:25234200-25240400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr10:25234200-25240400	Weak transcription	Colon Smooth Muscle	Colon
4	chr10:25234200-25240600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr10:25234200-25240600	Weak transcription	Right Atrium	heart
6	chr10:25234400-25240600	Weak transcription	Adipose Nuclei	Adipose
7	chr10:25235400-25240400	Enhancers	Brain Substantia Nigra	brain
8	chr10:25236200-25241000	Weak transcription	Thymus	Thymus
9	chr10:25236600-25240200	Weak transcription	NHLF	lung
10	chr10:25236800-25240600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr10:25236800-25240600	Weak transcription	Left Ventricle	heart
12	chr10:25237000-25240200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr10:25237000-25240400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr10:25237000-25240400	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr10:25237000-25240400	Weak transcription	Pancreas	Pancrea
16	chr10:25237000-25240400	Weak transcription	Osteobl	bone
17	chr10:25237000-25240600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr10:25237000-25240600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr10:25237000-25240600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr10:25237000-25240600	Weak transcription	NH-A	brain
21	chr10:25237000-25240800	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr10:25237000-25241000	Weak transcription	Ovary	ovary
23	chr10:25237200-25240400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr10:25237200-25240400	Weak transcription	GM12878-XiMat	blood
25	chr10:25237200-25240600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr10:25237200-25240600	Weak transcription	HUVEC	blood vessel
27	chr10:25237200-25240800	Weak transcription	HMEC	breast
28	chr10:25237400-25240600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr10:25237400-25240800	Weak transcription	NHEK	skin
30	chr10:25237400-25241400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr10:25237800-25240400	Weak transcription	Hela-S3	cervix
32	chr10:25237800-25241200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr10:25238800-25240400	Enhancers	Brain Cingulate Gyrus	brain
34	chr10:25238800-25240400	Enhancers	Brain Inferior Temporal Lobe	brain
35	chr10:25238800-25240600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr10:25239000-25240200	Weak transcription	Stomach Mucosa	stomach
37	chr10:25239200-25240200	Enhancers	H1 Cell Line	embryonic stem cell
38	chr10:25239200-25240400	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr10:25239200-25240400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
40	chr10:25239400-25240600	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr10:25239400-25241000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr10:25239600-25240600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr10:25239600-25240600	Weak transcription	Placenta	Placenta
44	chr10:25239800-25240200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr10:25239800-25240200	Enhancers	Brain Anterior Caudate	brain
46	chr10:25239800-25240200	Active TSS	Fetal Kidney	kidney
47	chr10:25239800-25240200	Enhancers	HepG2	liver
48	chr10:25239800-25240400	Enhancers	HUES6 Cell Line	embryonic stem cell
49	chr10:25239800-25240400	Enhancers	Fetal Lung	lung
50	chr10:25239800-25240400	Enhancers	A549	lung

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