Variant report

Variant	rs2869578
Chromosome Location	chr17:63179757-63179758
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:63178028..63180075-chr17:63181062..63183673,2	K562	blood:
2	chr17:63117639..63119496-chr17:63177929..63179773,2	MCF-7	breast:
3	chr17:63173795..63175589-chr17:63177989..63180729,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000265883	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10514867	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11650746	0.94[ASN][1000 genomes]
rs11651062	0.94[ASN][1000 genomes]
rs11651081	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11654243	0.87[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11654391	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11657250	0.94[ASN][1000 genomes]
rs11658655	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11658673	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11658736	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11658773	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1514500	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs16960903	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16960905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16960920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16960957	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961015	1.00[CHB][hapmap]
rs16961273	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs28451574	0.81[ASN][1000 genomes]
rs28525077	0.81[ASN][1000 genomes]
rs2869579	0.94[ASN][1000 genomes]
rs2869580	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2869582	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2869584	0.94[ASN][1000 genomes]
rs4293415	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4588019	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4791220	0.88[CEU][hapmap]
rs4791223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4791227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4791228	0.81[EUR][1000 genomes]
rs55948632	0.81[ASN][1000 genomes]
rs55948933	0.94[ASN][1000 genomes]
rs56102951	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59173947	0.81[ASN][1000 genomes]
rs61708414	0.81[ASN][1000 genomes]
rs7207726	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs7211341	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7215502	0.94[ASN][1000 genomes]
rs7217524	1.00[JPT][hapmap]
rs7217548	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7218518	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7220710	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7220949	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7221103	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73330407	0.87[ASN][1000 genomes]
rs73347632	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8065438	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8065444	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8065725	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8066063	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8066072	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8068016	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8071603	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8072543	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8072633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs8080929	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs908089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs925674	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9889653	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9896245	1.00[CEU][hapmap]
rs9897592	1.00[CEU][hapmap]
rs9898825	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9900568	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9900709	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9901108	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9904207	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9907146	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9907374	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9908359	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9914418	0.94[ASN][1000 genomes]
rs9914790	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9916092	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9916789	0.94[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530764	chr17:62939944-63278472	Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:63157000-63179800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr17:63160000-63180400	Weak transcription	Brain Substantia Nigra	brain
3	chr17:63169800-63190800	Weak transcription	Gastric	stomach
4	chr17:63170000-63180200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr17:63173000-63179800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr17:63173400-63179800	Weak transcription	Aorta	Aorta
7	chr17:63173600-63180000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr17:63174400-63179800	Weak transcription	NH-A	brain
9	chr17:63174400-63180000	Weak transcription	Osteobl	bone
10	chr17:63175400-63179800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr17:63175400-63179800	Weak transcription	Brain Hippocampus Middle	brain
12	chr17:63176000-63180000	Weak transcription	NHLF	lung
13	chr17:63176000-63181000	Weak transcription	Fetal Kidney	kidney
14	chr17:63176200-63179800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr17:63176200-63179800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr17:63176200-63180400	Weak transcription	Brain Angular Gyrus	brain
17	chr17:63176200-63180400	Weak transcription	Brain Cingulate Gyrus	brain
18	chr17:63176400-63179800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr17:63176400-63179800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr17:63176400-63179800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr17:63176400-63179800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr17:63176400-63180000	Weak transcription	Brain Anterior Caudate	brain
23	chr17:63176400-63223800	Weak transcription	Lung	lung
24	chr17:63176600-63180600	Enhancers	Primary T cells fromperipheralblood	blood
25	chr17:63177600-63179800	Enhancers	Spleen	Spleen
26	chr17:63178000-63181600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr17:63178200-63179800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr17:63178400-63179800	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr17:63178400-63179800	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr17:63178400-63180600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr17:63178400-63181200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr17:63178400-63181200	Enhancers	HUVEC	blood vessel
33	chr17:63178800-63179800	Enhancers	GM12878-XiMat	blood
34	chr17:63178800-63181400	Weak transcription	K562	blood
35	chr17:63178800-63182000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr17:63178800-63182200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr17:63179000-63179800	Enhancers	iPS-20b Cell Line	embryonic stem cell
38	chr17:63179000-63179800	Weak transcription	Rectal Smooth Muscle	rectum
39	chr17:63179000-63180800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr17:63179000-63181000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr17:63179000-63183000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr17:63179200-63179800	Weak transcription	Colonic Mucosa	Colon
43	chr17:63179200-63180600	Weak transcription	Dnd41	blood
44	chr17:63179200-63182000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr17:63179400-63180800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr17:63179400-63182200	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr17:63179400-63182600	Enhancers	H1 Cell Line	embryonic stem cell
48	chr17:63179600-63179800	Enhancers	iPS-18 Cell Line	embryonic stem cell
49	chr17:63179600-63180600	Enhancers	Placenta	Placenta
50	chr17:63179600-63181000	Enhancers	Muscle Satellite Cultured Cells	--

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