Variant report

Variant	rs16843803
Chromosome Location	chr4:3104351-3104352
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:3075725..3079021-chr4:3101094..3105877,5	MCF-7	breast:
2	chr4:3103289..3106037-chr4:3106708..3108502,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197386	Chromatin interaction
ENSG00000251075	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10021254	1.00[ASN][1000 genomes]
rs10034669	1.00[ASN][1000 genomes]
rs10155264	1.00[ASN][1000 genomes]
rs10488840	1.00[ASN][1000 genomes]
rs1065745	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843824	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844026	1.00[ASN][1000 genomes]
rs16844028	1.00[ASN][1000 genomes]
rs17780617	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2003530	1.00[ASN][1000 genomes]
rs28436280	1.00[ASN][1000 genomes]
rs28507598	1.00[ASN][1000 genomes]
rs28643391	1.00[ASN][1000 genomes]
rs3025825	1.00[ASN][1000 genomes]
rs3025849	1.00[EUR][1000 genomes]
rs3025851	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34045730	1.00[ASN][1000 genomes]
rs34591077	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs362269	1.00[ASN][1000 genomes]
rs362278	1.00[ASN][1000 genomes]
rs362303	1.00[ASN][1000 genomes]
rs362304	1.00[ASN][1000 genomes]
rs362305	1.00[ASN][1000 genomes]
rs362310	1.00[ASN][1000 genomes]
rs362323	1.00[ASN][1000 genomes]
rs362325	1.00[ASN][1000 genomes]
rs363065	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363067	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs363068	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs363069	1.00[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363071	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363074	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs363078	1.00[ASN][1000 genomes]
rs363084	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363087	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363089	1.00[CEU][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363094	1.00[ASN][1000 genomes]
rs363095	1.00[ASN][1000 genomes]
rs363103	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363104	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs363105	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363128	1.00[ASN][1000 genomes]
rs56794194	1.00[ASN][1000 genomes]
rs57196404	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59588638	1.00[ASN][1000 genomes]
rs61460614	1.00[ASN][1000 genomes]
rs61583241	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790489	1.00[ASN][1000 genomes]
rs61790490	1.00[ASN][1000 genomes]
rs61792472	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792477	1.00[ASN][1000 genomes]
rs61792500	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792501	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792502	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792503	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792505	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792507	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792508	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792509	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792510	1.00[ASN][1000 genomes]
rs61792512	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61792515	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61792531	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792532	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792533	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73073018	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7440822	0.85[YRI][hapmap];0.84[AFR][1000 genomes]
rs7674122	1.00[ASN][1000 genomes]
rs7683309	1.00[ASN][1000 genomes]
rs7686771	1.00[ASN][1000 genomes]
rs7692292	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7699037	1.00[ASN][1000 genomes]
rs9993781	1.00[ASN][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	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv461163	chr4:2906285-3234980	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv593437	chr4:2906285-3234980	Genic enhancers Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3078200-3109800	Weak transcription	Stomach Mucosa	stomach
2	chr4:3078400-3107000	Weak transcription	HMEC	breast
3	chr4:3078600-3113800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr4:3078800-3108800	Weak transcription	Psoas Muscle	Psoas
5	chr4:3079800-3107200	Weak transcription	Fetal Brain Male	brain
6	chr4:3080000-3117800	Weak transcription	Small Intestine	intestine
7	chr4:3084400-3109000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr4:3084600-3109000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr4:3085600-3107000	Weak transcription	K562	blood
10	chr4:3087800-3108800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr4:3088200-3164200	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr4:3092400-3108200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr4:3093400-3108800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr4:3093600-3109200	Weak transcription	Fetal Heart	heart
15	chr4:3094400-3123400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
16	chr4:3094600-3105000	Strong transcription	Primary B cells from cord blood	blood
17	chr4:3095000-3108200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr4:3095200-3109000	Weak transcription	A549	lung
19	chr4:3095600-3107200	Weak transcription	HSMMtube	muscle
20	chr4:3096400-3108000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr4:3097000-3108200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr4:3097200-3143400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr4:3097200-3162200	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr4:3097400-3107400	Strong transcription	GM12878-XiMat	blood
25	chr4:3097400-3107800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
26	chr4:3097400-3163800	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr4:3097600-3104600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr4:3098000-3162600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr4:3098600-3109800	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr4:3099800-3108200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr4:3099800-3108200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr4:3099800-3114400	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr4:3100000-3104800	Strong transcription	Dnd41	blood
34	chr4:3100000-3107800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr4:3100000-3108000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr4:3100000-3108200	Strong transcription	Primary B cells from peripheral blood	blood
37	chr4:3100000-3110400	Strong transcription	Primary hematopoietic stem cells	blood
38	chr4:3100000-3159400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr4:3100400-3104800	Strong transcription	Primary T cells from cord blood	blood
40	chr4:3100400-3112000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr4:3100600-3104800	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr4:3100600-3106400	Weak transcription	NHDF-Ad	bronchial
43	chr4:3100600-3108000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr4:3100600-3108400	Strong transcription	Fetal Muscle Trunk	muscle
45	chr4:3100800-3104400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr4:3100800-3104600	Strong transcription	Brain Cingulate Gyrus	brain
47	chr4:3100800-3104800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr4:3100800-3104800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr4:3100800-3104800	Strong transcription	Liver	Liver
50	chr4:3100800-3104800	Strong transcription	Brain Hippocampus Middle	brain

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