Variant report

Variant	rs10874845
Chromosome Location	chr1:94703767-94703768
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:94702245-94703824	ECC-1	luminal epithelium:	n/a	n/a
2	SIN3AK20	chr1:94702681-94703799	HCT-116	colon:	n/a	n/a
3	POLR2A	chr1:94700194-94705855	PANC-1	pancreas:	n/a	n/a
4	POLR2A	chr1:94702925-94703852	HepG2	liver:	n/a	n/a
5	POLR2A	chr1:94701676-94704719	HCT-116	colon:	n/a	n/a
6	POLR2A	chr1:94702604-94704330	HCT-116	colon:	n/a	n/a
7	POLR2A	chr1:94702834-94704582	HCT-116	colon:	n/a	n/a
8	POLR2A	chr1:94700765-94705191	PANC-1	pancreas:	n/a	n/a
9	SIN3AK20	chr1:94702235-94703776	HCT-116	colon:	n/a	n/a
10	YY1	chr1:94703209-94703784	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
ARHGAP29	TF binding region

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10399782	1.00[EUR][1000 genomes]
rs10782981	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11800866	1.00[EUR][1000 genomes]
rs11801203	1.00[EUR][1000 genomes]
rs11801251	1.00[EUR][1000 genomes]
rs11802178	1.00[EUR][1000 genomes]
rs11802887	1.00[EUR][1000 genomes]
rs11803374	1.00[EUR][1000 genomes]
rs11803749	1.00[EUR][1000 genomes]
rs11805161	1.00[EUR][1000 genomes]
rs11806223	1.00[EUR][1000 genomes]
rs12069536	1.00[EUR][1000 genomes]
rs1318396	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1330856	1.00[EUR][1000 genomes]
rs1330858	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1330859	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1330860	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1337856	1.00[EUR][1000 genomes]
rs1337857	1.00[EUR][1000 genomes]
rs1361124	1.00[EUR][1000 genomes]
rs1411697	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1411703	1.00[EUR][1000 genomes]
rs1571645	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1577920	1.00[EUR][1000 genomes]
rs1616972	1.00[EUR][1000 genomes]
rs1617363	1.00[EUR][1000 genomes]
rs1617719	1.00[EUR][1000 genomes]
rs1687921	1.00[EUR][1000 genomes]
rs1687922	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1687923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1687925	1.00[EUR][1000 genomes]
rs1687926	1.00[EUR][1000 genomes]
rs1687929	1.00[EUR][1000 genomes]
rs1687934	1.00[EUR][1000 genomes]
rs1687938	1.00[EUR][1000 genomes]
rs1687939	1.00[EUR][1000 genomes]
rs1687942	1.00[EUR][1000 genomes]
rs1687945	1.00[EUR][1000 genomes]
rs1687953	1.00[EUR][1000 genomes]
rs1687955	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1687958	1.00[EUR][1000 genomes]
rs1687959	1.00[EUR][1000 genomes]
rs1687960	1.00[EUR][1000 genomes]
rs1687967	1.00[EUR][1000 genomes]
rs1687969	1.00[EUR][1000 genomes]
rs17111347	1.00[EUR][1000 genomes]
rs1749540	1.00[EUR][1000 genomes]
rs1756247	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1756256	1.00[EUR][1000 genomes]
rs1756258	1.00[EUR][1000 genomes]
rs1756263	1.00[EUR][1000 genomes]
rs1756264	1.00[EUR][1000 genomes]
rs1765616	1.00[EUR][1000 genomes]
rs1765624	1.00[EUR][1000 genomes]
rs1765625	1.00[EUR][1000 genomes]
rs1765631	1.00[EUR][1000 genomes]
rs1765633	1.00[EUR][1000 genomes]
rs1765634	1.00[EUR][1000 genomes]
rs1765638	1.00[EUR][1000 genomes]
rs1765639	1.00[EUR][1000 genomes]
rs1765642	1.00[EUR][1000 genomes]
rs2021993	1.00[EUR][1000 genomes]
rs2094824	1.00[EUR][1000 genomes]
rs2391471	1.00[EUR][1000 genomes]
rs2483792	1.00[EUR][1000 genomes]
rs2774921	1.00[EUR][1000 genomes]
rs28494821	1.00[EUR][1000 genomes]
rs2893296	1.00[EUR][1000 genomes]
rs479627	1.00[EUR][1000 genomes]
rs484420	1.00[EUR][1000 genomes]
rs4847297	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs512648	1.00[EUR][1000 genomes]
rs59778098	1.00[EUR][1000 genomes]
rs598962	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs610088	1.00[EUR][1000 genomes]
rs6541341	1.00[AFR][1000 genomes]
rs6673287	1.00[EUR][1000 genomes]
rs6684237	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7417304	1.00[EUR][1000 genomes]
rs7548077	1.00[EUR][1000 genomes]
rs9432270	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9432441	1.00[EUR][1000 genomes]
rs9432688	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	esv3326788	chr1:94701989-94704537	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:94699600-94703800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr1:94700600-94703800	Active TSS	Right Atrium	heart
3	chr1:94700800-94703800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:94701000-94703800	Active TSS	Psoas Muscle	Psoas
5	chr1:94701000-94703800	Active TSS	Right Ventricle	heart
6	chr1:94701000-94704000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
7	chr1:94701200-94703800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr1:94701200-94703800	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr1:94701200-94703800	Active TSS	Left Ventricle	heart
10	chr1:94701400-94703800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr1:94701600-94703800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr1:94701600-94704000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
13	chr1:94701800-94703800	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
14	chr1:94701800-94703800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr1:94701800-94704000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
16	chr1:94701800-94704000	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
17	chr1:94702000-94703800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr1:94702200-94704200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
19	chr1:94702200-94704200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
20	chr1:94702400-94703800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:94702600-94703800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr1:94702600-94703800	Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr1:94702600-94703800	Active TSS	Rectal Smooth Muscle	rectum
24	chr1:94702600-94704000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
25	chr1:94702800-94703800	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
26	chr1:94702800-94704000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
27	chr1:94702800-94704000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
28	chr1:94702800-94704000	Active TSS	Brain Angular Gyrus	brain
29	chr1:94702800-94704000	Active TSS	HepG2	liver
30	chr1:94703000-94703800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
31	chr1:94703000-94703800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr1:94703200-94703800	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
33	chr1:94703200-94703800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr1:94703200-94703800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
35	chr1:94703200-94704200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
36	chr1:94703200-94706400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr1:94703400-94703800	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr1:94703400-94703800	Flanking Active TSS	Adipose Nuclei	Adipose
39	chr1:94703400-94703800	Flanking Active TSS	Liver	Liver
40	chr1:94703400-94703800	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
41	chr1:94703400-94703800	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
42	chr1:94703400-94703800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
43	chr1:94703400-94703800	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
44	chr1:94703400-94703800	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
45	chr1:94703400-94703800	Flanking Active TSS	Stomach Smooth Muscle	stomach
46	chr1:94703400-94704000	Enhancers	Fetal Heart	heart
47	chr1:94703400-94704200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr1:94703400-94704200	Flanking Active TSS	NHEK	skin
49	chr1:94703600-94703800	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
50	chr1:94703600-94703800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell

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