Variant report

Variant	rs28627334
Chromosome Location	chr4:95171408-95171409
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	FOXA1	chr4:95171258-95171563	T-47D	breast:	n/a	n/a

Variant related genes	Relation type
SMARCAD1	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10007571	1.00[AMR][1000 genomes]
rs10011076	1.00[AMR][1000 genomes]
rs10014367	1.00[AMR][1000 genomes]
rs10034816	1.00[AMR][1000 genomes]
rs10213096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483872	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28497628	1.00[AMR][1000 genomes]
rs28539776	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28548547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28573143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28587635	1.00[AMR][1000 genomes]
rs28767238	1.00[AMR][1000 genomes]
rs28794639	1.00[AMR][1000 genomes]
rs28805388	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58386866	0.87[AFR][1000 genomes]
rs61301932	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61519851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7356258	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9993132	0.98[AFR][1000 genomes];1.00[AMR][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	nsv993495	chr4:94992315-95482578	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	esv1850963	chr4:95146281-95175682	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95130000-95176000	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr4:95130200-95193000	Weak transcription	Right Ventricle	heart
3	chr4:95130200-95194000	Weak transcription	Gastric	stomach
4	chr4:95130200-95198200	Weak transcription	Colonic Mucosa	Colon
5	chr4:95131600-95198200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr4:95136600-95174400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:95138800-95214400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:95145400-95175000	Strong transcription	Dnd41	blood
9	chr4:95146000-95214200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr4:95146200-95214200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr4:95146200-95214400	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr4:95146600-95175800	Strong transcription	HUES6 Cell Line	embryonic stem cell
13	chr4:95148200-95180800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
14	chr4:95151400-95214400	Strong transcription	HUES48 Cell Line	embryonic stem cell
15	chr4:95152200-95202000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr4:95152600-95174400	Weak transcription	Brain Angular Gyrus	brain
17	chr4:95154200-95173000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr4:95154600-95175800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr4:95155000-95177400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr4:95155400-95175800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:95157600-95172800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr4:95158000-95172600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr4:95158200-95173800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr4:95158200-95225800	Weak transcription	Stomach Mucosa	stomach
25	chr4:95158600-95172600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr4:95161000-95172800	Strong transcription	HUVEC	blood vessel
27	chr4:95161400-95175000	Strong transcription	HSMM	muscle
28	chr4:95161400-95207000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr4:95162800-95192000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr4:95163000-95172000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr4:95163000-95200200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr4:95163000-95210200	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr4:95163600-95173400	Weak transcription	Small Intestine	intestine
34	chr4:95164400-95173400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr4:95164400-95202800	Weak transcription	Pancreas	Pancrea
36	chr4:95164600-95173800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr4:95164600-95174000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr4:95164600-95200200	Weak transcription	Lung	lung
39	chr4:95164600-95200200	Weak transcription	Spleen	Spleen
40	chr4:95164800-95172200	Weak transcription	Fetal Kidney	kidney
41	chr4:95164800-95174200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr4:95165000-95174000	Weak transcription	Colon Smooth Muscle	Colon
43	chr4:95165000-95194200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr4:95165000-95198000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr4:95165200-95174000	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr4:95165400-95174000	Weak transcription	Brain Anterior Caudate	brain
47	chr4:95165400-95174000	Weak transcription	Brain Germinal Matrix	brain
48	chr4:95165400-95200000	Weak transcription	Fetal Brain Male	brain
49	chr4:95165400-95202800	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr4:95165800-95171800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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