Variant report

Variant	rs4715980
Chromosome Location	chr6:15483894-15483895
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15244637..15246523-chr6:15482002..15484249,2	MCF-7	breast:
2	chr6:15444974..15446606-chr6:15481523..15484287,2	K562	blood:
3	chr6:15483229..15486068-chr6:15489614..15491902,2	MCF-7	breast:
4	chr6:15474274..15478303-chr6:15480821..15484291,4	K562	blood:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10949304	0.85[ASN][1000 genomes]
rs11964846	1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11966626	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13192234	1.00[CEU][hapmap];0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.82[MEX][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13192892	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13194650	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13196869	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13198780	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13202100	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13202955	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13204842	0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13208563	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13209668	1.00[CEU][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17455404	0.84[ASW][hapmap];1.00[CEU][hapmap];0.80[GIH][hapmap];0.90[LWK][hapmap];0.90[MKK][hapmap];0.97[TSI][hapmap];0.86[EUR][1000 genomes]
rs1967664	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2076056	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2237138	0.86[EUR][1000 genomes]
rs2299043	1.00[CEU][hapmap];0.91[GIH][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes]
rs35868206	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3819396	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4712251	1.00[CEU][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4715975	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4715979	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6899342	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6899343	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6917591	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs742099	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs742100	0.95[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7756331	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7761778	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7769291	0.95[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.82[MEX][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7774429	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9383056	0.86[EUR][1000 genomes]
rs9383062	0.93[EUR][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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
2	chr6:15458400-15484200	Weak transcription	Small Intestine	intestine
3	chr6:15461600-15491000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:15471000-15488200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:15471000-15502000	Weak transcription	A549	lung
6	chr6:15471400-15488200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr6:15472000-15484200	Weak transcription	Liver	Liver
8	chr6:15476000-15487400	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:15476200-15486600	Weak transcription	Dnd41	blood
10	chr6:15476200-15487200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:15476400-15487200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:15476600-15486600	Weak transcription	GM12878-XiMat	blood
13	chr6:15476600-15487000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:15476600-15487200	Weak transcription	Fetal Intestine Large	intestine
15	chr6:15476800-15484200	Weak transcription	Fetal Intestine Small	intestine
16	chr6:15476800-15487000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr6:15476800-15487600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:15477600-15486200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr6:15477600-15487400	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:15477600-15487600	Weak transcription	HepG2	liver
21	chr6:15478200-15487600	Weak transcription	Ovary	ovary
22	chr6:15478400-15484400	Weak transcription	Aorta	Aorta
23	chr6:15478400-15485800	Weak transcription	Colon Smooth Muscle	Colon
24	chr6:15478400-15487600	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr6:15478600-15484000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr6:15478600-15487400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:15478800-15486400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr6:15479400-15486200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr6:15480200-15484400	Weak transcription	Pancreas	Pancrea
30	chr6:15480200-15486200	Weak transcription	Primary B cells from cord blood	blood
31	chr6:15480200-15486200	Weak transcription	Lung	lung
32	chr6:15480200-15486200	Weak transcription	Right Ventricle	heart
33	chr6:15480200-15487400	Weak transcription	Esophagus	oesophagus
34	chr6:15480200-15487400	Weak transcription	Stomach Smooth Muscle	stomach
35	chr6:15480400-15484400	Weak transcription	Gastric	stomach
36	chr6:15480400-15484800	Enhancers	Primary T helper cells PMA-I stimulated	--
37	chr6:15480400-15486000	Weak transcription	Primary B cells from peripheral blood	blood
38	chr6:15480400-15486200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:15480400-15486200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr6:15480400-15487200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:15480400-15487200	Weak transcription	Brain Anterior Caudate	brain
42	chr6:15480400-15487400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:15480400-15487400	Weak transcription	Adipose Nuclei	Adipose
44	chr6:15480400-15487800	Weak transcription	NHLF	lung
45	chr6:15480400-15488200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr6:15480400-15490600	Weak transcription	NHDF-Ad	bronchial
47	chr6:15480600-15485600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr6:15480600-15485600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr6:15480600-15488400	Weak transcription	NH-A	brain
50	chr6:15480800-15484000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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