Variant report

Variant	rs6834685
Chromosome Location	chr4:110474128-110474129
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	chr4:110473996-110474196	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
CDC42P4	TF binding region

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10016533	0.82[EUR][1000 genomes]
rs10025781	0.82[EUR][1000 genomes]
rs10452150	0.82[EUR][1000 genomes]
rs13110999	0.82[EUR][1000 genomes]
rs13122093	0.82[EUR][1000 genomes]
rs13132816	0.85[EUR][1000 genomes]
rs13133491	0.85[EUR][1000 genomes]
rs13140373	0.85[EUR][1000 genomes]
rs13147210	0.91[EUR][1000 genomes]
rs13151464	0.82[EUR][1000 genomes]
rs13151516	0.85[EUR][1000 genomes]
rs15821	0.85[EUR][1000 genomes]
rs33911248	0.82[EUR][1000 genomes]
rs34132975	0.82[EUR][1000 genomes]
rs34133579	0.85[EUR][1000 genomes]
rs34368920	0.96[EUR][1000 genomes]
rs34398932	0.90[EUR][1000 genomes]
rs34473874	0.96[EUR][1000 genomes]
rs34502105	0.85[EUR][1000 genomes]
rs34660885	0.82[EUR][1000 genomes]
rs34710885	0.85[EUR][1000 genomes]
rs34727629	0.85[EUR][1000 genomes]
rs34813537	0.82[EUR][1000 genomes]
rs34851707	0.85[EUR][1000 genomes]
rs34861128	0.82[EUR][1000 genomes]
rs34953524	0.85[EUR][1000 genomes]
rs35199349	0.85[EUR][1000 genomes]
rs35313553	0.82[EUR][1000 genomes]
rs35329136	0.85[EUR][1000 genomes]
rs35450490	0.82[EUR][1000 genomes]
rs35598950	0.85[EUR][1000 genomes]
rs35699695	0.82[EUR][1000 genomes]
rs35865655	0.98[EUR][1000 genomes]
rs35866656	0.82[EUR][1000 genomes]
rs35950484	0.82[EUR][1000 genomes]
rs36102563	0.82[EUR][1000 genomes]
rs41277037	0.85[EUR][1000 genomes]
rs6533434	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66493839	0.85[EUR][1000 genomes]
rs67727505	0.80[EUR][1000 genomes]
rs67923759	0.82[EUR][1000 genomes]
rs6828719	0.98[EUR][1000 genomes]
rs6852037	0.82[AMR][1000 genomes]
rs71603034	0.83[EUR][1000 genomes]
rs71603035	0.98[EUR][1000 genomes]
rs72672698	0.98[EUR][1000 genomes]
rs7694710	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv980240	chr4:110467259-110476042	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110423400-110480800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:110448800-110479600	Weak transcription	Small Intestine	intestine
3	chr4:110448800-110480000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr4:110452400-110480800	Weak transcription	Right Ventricle	heart
5	chr4:110454000-110480600	Weak transcription	NHLF	lung
6	chr4:110454600-110480200	Weak transcription	A549	lung
7	chr4:110455600-110480600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr4:110456400-110480600	Weak transcription	Brain Substantia Nigra	brain
9	chr4:110456400-110481600	Weak transcription	Fetal Heart	heart
10	chr4:110457400-110480600	Weak transcription	Right Atrium	heart
11	chr4:110460200-110480800	Weak transcription	Brain Anterior Caudate	brain
12	chr4:110461000-110480600	Weak transcription	HSMMtube	muscle
13	chr4:110461200-110479600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr4:110462000-110478400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:110462400-110474400	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr4:110462600-110479600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:110462800-110480800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr4:110463200-110480800	Weak transcription	Colonic Mucosa	Colon
19	chr4:110464000-110476200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr4:110464400-110478800	Weak transcription	Dnd41	blood
21	chr4:110464600-110476000	Weak transcription	Thymus	Thymus
22	chr4:110464600-110480600	Weak transcription	Brain Hippocampus Middle	brain
23	chr4:110464600-110480600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr4:110464800-110480200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr4:110464800-110480800	Weak transcription	Gastric	stomach
26	chr4:110465400-110475600	Weak transcription	Fetal Intestine Large	intestine
27	chr4:110465400-110480600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr4:110465400-110480600	Weak transcription	Fetal Muscle Leg	muscle
29	chr4:110465600-110480600	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr4:110465800-110480200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr4:110467800-110478800	Weak transcription	Fetal Stomach	stomach
32	chr4:110467800-110480400	Weak transcription	Stomach Smooth Muscle	stomach
33	chr4:110467800-110480800	Weak transcription	Left Ventricle	heart
34	chr4:110468200-110480200	Weak transcription	GM12878-XiMat	blood
35	chr4:110468400-110480800	Weak transcription	Liver	Liver
36	chr4:110469400-110474400	Weak transcription	Ovary	ovary
37	chr4:110469600-110474200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr4:110469600-110480600	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr4:110469800-110480600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr4:110469800-110480600	Weak transcription	Fetal Muscle Trunk	muscle
41	chr4:110470000-110476000	Weak transcription	HSMM	muscle
42	chr4:110470000-110480200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr4:110470200-110476200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr4:110470200-110478400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr4:110470200-110480000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr4:110470200-110480000	Weak transcription	Primary T cells from cord blood	blood
47	chr4:110470400-110480200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr4:110470400-110480400	Weak transcription	Primary B cells from cord blood	blood
49	chr4:110470400-110480400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr4:110470400-110480800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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