Variant report

Variant	rs29001260
Chromosome Location	chr10:99255209-99255210
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:9)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr10:99254926-99255282	H1-hESC	embryonic stem cell:	n/a	n/a
2	SIN3A	chr10:99254873-99255291	H1-hESC	embryonic stem cell:	n/a	n/a
3	GTF2F1	chr10:99255138-99255269	H1-hESC	embryonic stem cell:	n/a	n/a
4	SIN3AK20	chr10:99254920-99255226	H1-hESC	embryonic stem cell:	n/a	n/a
5	YY1	chr10:99254951-99255285	H1-hESC	embryonic stem cell:	n/a	n/a
6	ARID3A	chr10:99255118-99255290	HepG2	liver:	n/a	n/a
7	CEBPB	chr10:99254888-99255212	H1-hESC	embryonic stem cell:	n/a	n/a
8	SIN3AK20	chr10:99254860-99255265	H1-hESC	embryonic stem cell:	n/a	n/a
9	WRNIP1	chr10:99255083-99255261	GM12878	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99248992..99255448-chr10:99256116..99258644,11	K562	blood:
2	chr10:99254835..99256478-chr10:99258857..99262357,3	MCF-7	breast:
3	chr10:99255036..99258001-chr10:99391751..99393858,2	K562	blood:
4	chr10:99230735..99233202-chr10:99255020..99257889,3	MCF-7	breast:
5	chr10:99249819..99251861-chr10:99254679..99256807,3	MCF-7	breast:
6	chr10:99253255..99256106-chr10:99256455..99258608,4	MCF-7	breast:

No data

Variant related genes	Relation type
UBTD1	TF binding region
ENSG00000165886	Chromatin interaction
ENSG00000171160	Chromatin interaction
ENSG00000155229	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs28987103	1.00[AFR][1000 genomes]
rs28987115	1.00[AFR][1000 genomes]
rs28987118	1.00[AFR][1000 genomes]
rs29001276	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs29001282	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs29001310	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs29001317	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs29001328	1.00[EUR][1000 genomes]
rs29001329	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4356162	1.00[EUR][1000 genomes]
rs59190388	1.00[EUR][1000 genomes]
rs73326858	1.00[EUR][1000 genomes]
rs73326861	1.00[EUR][1000 genomes]
rs73326865	1.00[EUR][1000 genomes]
rs73326869	1.00[EUR][1000 genomes]
rs73326879	1.00[EUR][1000 genomes]
rs73328805	1.00[EUR][1000 genomes]
rs7919755	1.00[EUR][1000 genomes]

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	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

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99239400-99257400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:99240800-99256000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr10:99240800-99257400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:99241200-99256800	Weak transcription	Colonic Mucosa	Colon
5	chr10:99241200-99256800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr10:99241800-99256400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr10:99243800-99256000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr10:99244200-99257200	Weak transcription	Placenta	Placenta
9	chr10:99245000-99255600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr10:99250600-99256800	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr10:99250800-99256600	Weak transcription	NHLF	lung
12	chr10:99250800-99256800	Weak transcription	Aorta	Aorta
13	chr10:99250800-99257400	Weak transcription	Ovary	ovary
14	chr10:99251000-99256800	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr10:99251200-99255400	Weak transcription	Fetal Brain Male	brain
16	chr10:99251200-99256400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr10:99251200-99256600	Weak transcription	Liver	Liver
18	chr10:99251200-99256800	Weak transcription	HSMMtube	muscle
19	chr10:99252200-99257200	Enhancers	Brain Cingulate Gyrus	brain
20	chr10:99252400-99255400	Enhancers	Brain Hippocampus Middle	brain
21	chr10:99253000-99256200	Enhancers	Left Ventricle	heart
22	chr10:99253000-99256600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr10:99253000-99257000	Enhancers	Brain Anterior Caudate	brain
24	chr10:99253000-99257200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
25	chr10:99253000-99257200	Enhancers	Right Atrium	heart
26	chr10:99253200-99257200	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr10:99253400-99255600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr10:99253400-99256200	Weak transcription	HSMM	muscle
29	chr10:99253400-99257000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr10:99253400-99257200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr10:99253400-99257200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr10:99253600-99255400	Enhancers	Fetal Kidney	kidney
33	chr10:99253600-99256200	Enhancers	Gastric	stomach
34	chr10:99253600-99256600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr10:99253600-99256800	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr10:99253600-99257000	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr10:99253600-99257200	Enhancers	Fetal Heart	heart
38	chr10:99253800-99255400	Enhancers	Duodenum Smooth Muscle	Duodenum
39	chr10:99253800-99256400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr10:99253800-99256800	Enhancers	Brain Germinal Matrix	brain
41	chr10:99253800-99257200	Enhancers	Primary T cells fromperipheralblood	blood
42	chr10:99253800-99257200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr10:99254000-99255400	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr10:99254000-99255400	Enhancers	Colon Smooth Muscle	Colon
45	chr10:99254000-99255400	Enhancers	Osteobl	bone
46	chr10:99254000-99256200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr10:99254000-99256200	Genic enhancers	Fetal Muscle Leg	muscle
48	chr10:99254000-99256200	Enhancers	Pancreas	Pancrea
49	chr10:99254000-99256200	Genic enhancers	Dnd41	blood
50	chr10:99254000-99256800	Enhancers	H1 Cell Line	embryonic stem cell

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