Variant report

Variant	rs55896828
Chromosome Location	chr10:22882734-22882735
allele	A/G
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	chr10:22882619-22883185	K562	blood:	n/a	n/a
2	CTCF	chr10:22882620-22882770	MCF-7	breast:	n/a	n/a
3	GATA3	chr10:22882275-22883139	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:22881423..22883743-chr10:22885437..22887550,3	MCF-7	breast:
2	chr10:22710033..22710777-chr10:22882456..22882995,2	MCF-7	breast:

Variant related genes	Relation type
PIP4K2A	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs55839230	1.00[AMR][1000 genomes]
rs72814844	1.00[AMR][1000 genomes]
rs72814850	1.00[AMR][1000 genomes]
rs72816807	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816821	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816822	0.94[EUR][1000 genomes]
rs72816823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72816824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816829	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816831	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816836	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72816839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72816840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72816843	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72816845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72816849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72816854	1.00[AMR][1000 genomes]
rs72816861	1.00[AMR][1000 genomes]
rs72816867	1.00[AMR][1000 genomes]
rs72816870	1.00[AMR][1000 genomes]
rs72816876	1.00[AMR][1000 genomes]
rs72816881	1.00[AMR][1000 genomes]
rs72816884	1.00[AMR][1000 genomes]
rs72816885	1.00[AMR][1000 genomes]
rs72816887	1.00[AMR][1000 genomes]
rs72816889	1.00[AMR][1000 genomes]
rs72816890	1.00[AMR][1000 genomes]
rs72816895	1.00[AMR][1000 genomes]
rs72816896	1.00[AMR][1000 genomes]
rs72816897	1.00[AMR][1000 genomes]
rs72816898	1.00[AMR][1000 genomes]
rs72816899	1.00[AMR][1000 genomes]
rs72816900	1.00[AMR][1000 genomes]
rs72818804	1.00[AMR][1000 genomes]
rs72818805	1.00[AMR][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	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22825600-22888000	Weak transcription	HMEC	breast
2	chr10:22829000-22887400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr10:22844200-22904800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr10:22854200-22887400	Weak transcription	NHDF-Ad	bronchial
5	chr10:22854200-22887400	Weak transcription	NHEK	skin
6	chr10:22856600-22899200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr10:22856800-22888200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:22857000-22888200	Weak transcription	Small Intestine	intestine
9	chr10:22858200-22904000	Weak transcription	Colonic Mucosa	Colon
10	chr10:22862200-22885800	Weak transcription	NHLF	lung
11	chr10:22862400-22886000	Weak transcription	HSMMtube	muscle
12	chr10:22862400-22887400	Weak transcription	A549	lung
13	chr10:22862400-22902000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:22863800-22886400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr10:22866600-22887600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr10:22866600-22893800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr10:22870000-22885600	Weak transcription	NH-A	brain
18	chr10:22870200-22893400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr10:22870400-22895200	Weak transcription	HepG2	liver
20	chr10:22872000-22887600	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr10:22874000-22888200	Weak transcription	Placenta	Placenta
22	chr10:22875800-22888000	Weak transcription	Stomach Mucosa	stomach
23	chr10:22876600-22885600	Strong transcription	GM12878-XiMat	blood
24	chr10:22877200-22896400	Weak transcription	Fetal Intestine Large	intestine
25	chr10:22877400-22890200	Weak transcription	Right Ventricle	heart
26	chr10:22877600-22882800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr10:22877600-22893400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:22878600-22886000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr10:22879000-22894000	Genic enhancers	Primary T cells fromperipheralblood	blood
30	chr10:22879400-22885400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr10:22879400-22888400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr10:22879600-22887400	Weak transcription	HUVEC	blood vessel
33	chr10:22880000-22885400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr10:22880000-22886000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr10:22880000-22887400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr10:22880000-22890600	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr10:22880000-22906800	Weak transcription	Colon Smooth Muscle	Colon
38	chr10:22880200-22882800	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr10:22880200-22882800	Weak transcription	Brain Substantia Nigra	brain
40	chr10:22880200-22885600	Weak transcription	Brain Angular Gyrus	brain
41	chr10:22880200-22885600	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr10:22880200-22886000	Weak transcription	Pancreas	Pancrea
43	chr10:22880200-22887400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr10:22880200-22889400	Weak transcription	Aorta	Aorta
45	chr10:22880200-22890000	Weak transcription	Stomach Smooth Muscle	stomach
46	chr10:22880200-22890400	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr10:22880200-22893400	Weak transcription	Ovary	ovary
48	chr10:22880200-22893800	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr10:22880200-22895200	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr10:22880200-22896200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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