Variant report

Variant	rs9867730
Chromosome Location	chr3:46741299-46741300
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	EP300	chr3:46741102-46741722	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46736001..46738313-chr3:46739420..46741660,3	MCF-7	breast:
2	chr3:46739910..46741419-chr3:46753549..46755761,2	MCF-7	breast:

Variant related genes	Relation type
TMIE	TF binding region

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs4683316	0.90[CEU][hapmap];0.82[TSI][hapmap];0.89[EUR][1000 genomes]
rs6442022	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6803988	0.95[CEU][hapmap];0.85[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6806400	0.85[TSI][hapmap];0.81[AMR][1000 genomes]
rs6808525	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7431776	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7433347	0.82[TSI][hapmap]
rs9810659	0.95[CEU][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9861462	0.86[EUR][1000 genomes]
rs9868213	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv876739	chr3:46656980-46744966	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv876740	chr3:46656980-46748453	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv876741	chr3:46663372-46763839	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv516623	chr3:46680063-46852679	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	esv2757869	chr3:46680452-46972489	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	esv2759147	chr3:46680452-46972489	Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
9	esv1804680	chr3:46704348-46869911	Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
10	nsv876742	chr3:46705369-46763839	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
11	nsv536555	chr3:46706571-46817963	Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv536556	chr3:46706571-46849443	Genic enhancers Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
13	nsv536557	chr3:46706571-46853434	Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
14	nsv536558	chr3:46706571-47024756	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
15	esv1797503	chr3:46708712-46760713	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
16	nsv876743	chr3:46716523-46753577	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
17	nsv876744	chr3:46716523-46763839	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
18	nsv460525	chr3:46728659-46790397	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases
19	nsv590179	chr3:46728659-46790397	Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases
20	esv1847964	chr3:46729757-46753976	Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46735600-46742600	Weak transcription	Aorta	Aorta
2	chr3:46735800-46742000	Weak transcription	Fetal Brain Male	brain
3	chr3:46737200-46741400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:46737200-46741800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:46737600-46741400	Weak transcription	Stomach Mucosa	stomach
6	chr3:46737800-46741400	Weak transcription	Brain Substantia Nigra	brain
7	chr3:46737800-46741400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:46738000-46741400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:46738000-46741400	Weak transcription	Pancreas	Pancrea
10	chr3:46738000-46741600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr3:46738000-46742400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr3:46738000-46742800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:46738000-46742800	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr3:46738000-46743000	Weak transcription	Fetal Lung	lung
15	chr3:46738200-46741400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr3:46738400-46741400	Weak transcription	Ovary	ovary
17	chr3:46738400-46741800	Weak transcription	Brain Cingulate Gyrus	brain
18	chr3:46738400-46742000	Weak transcription	Esophagus	oesophagus
19	chr3:46738400-46743200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr3:46738600-46741400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr3:46738600-46741400	Weak transcription	Gastric	stomach
22	chr3:46738600-46741600	Weak transcription	HSMM	muscle
23	chr3:46738600-46741800	Weak transcription	HSMMtube	muscle
24	chr3:46739000-46741400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr3:46739000-46741400	Weak transcription	Spleen	Spleen
26	chr3:46739200-46741600	Weak transcription	Lung	lung
27	chr3:46739200-46741800	Weak transcription	Fetal Heart	heart
28	chr3:46739400-46741600	Weak transcription	Psoas Muscle	Psoas
29	chr3:46740000-46742200	Enhancers	Adipose Nuclei	Adipose
30	chr3:46740800-46741600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
31	chr3:46740800-46741800	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr3:46740800-46741800	Enhancers	Duodenum Smooth Muscle	Duodenum
33	chr3:46740800-46742200	Enhancers	Brain Hippocampus Middle	brain
34	chr3:46740800-46742600	Enhancers	Liver	Liver
35	chr3:46740800-46742800	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr3:46740800-46744000	Enhancers	Primary T helper naive cells from peripheral blood	blood
37	chr3:46741000-46741400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr3:46741000-46741600	Enhancers	Fetal Stomach	stomach
39	chr3:46741000-46741800	Enhancers	Primary B cells from cord blood	blood
40	chr3:46741000-46742400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
41	chr3:46741000-46742800	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr3:46741200-46741400	Enhancers	Primary T killer memory cells from peripheral blood	blood
43	chr3:46741200-46741800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr3:46741200-46741800	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr3:46741200-46742000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr3:46741200-46742000	Enhancers	Primary hematopoietic stem cells short term culture	blood
47	chr3:46741200-46742000	Bivalent Enhancer	Colonic Mucosa	Colon
48	chr3:46741200-46742000	Enhancers	Stomach Smooth Muscle	stomach
49	chr3:46741200-46742200	Enhancers	Brain Inferior Temporal Lobe	brain
50	chr3:46741200-46742200	Enhancers	Placenta	Placenta

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