Variant report

Variant	rs9909145
Chromosome Location	chr17:60065494-60065495
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:60065234..60067787-chr17:60072836..60076599,3	MCF-7	breast:
2	chr17:60059721..60061343-chr17:60064532..60067509,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10401014	0.87[LWK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16945750	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2278812	0.87[ASW][hapmap]
rs28431006	1.00[ASW][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4988342	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs58025472	1.00[EUR][1000 genomes]
rs58046635	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59794823	1.00[EUR][1000 genomes]
rs6504075	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6504076	1.00[EUR][1000 genomes]
rs6504078	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7211128	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7212399	1.00[EUR][1000 genomes]
rs7212824	1.00[ASW][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7212884	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7213026	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7217530	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs7221827	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7222876	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7224112	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7226248	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs73991952	1.00[EUR][1000 genomes]
rs8065060	1.00[EUR][1000 genomes]
rs8068267	0.93[ASW][hapmap];1.00[LWK][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8069386	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs8069903	1.00[EUR][1000 genomes]
rs8069946	1.00[EUR][1000 genomes]
rs8078342	1.00[EUR][1000 genomes]
rs9783837	0.90[AFR][1000 genomes]
rs9783841	1.00[EUR][1000 genomes]
rs9892063	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9892123	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9892513	0.89[AMR][1000 genomes]
rs9894718	1.00[EUR][1000 genomes]
rs9896768	1.00[EUR][1000 genomes]
rs9899042	0.87[LWK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9899780	0.93[ASW][hapmap];0.88[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9902699	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9903562	1.00[EUR][1000 genomes]
rs9905888	1.00[EUR][1000 genomes]
rs9909882	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9910067	1.00[EUR][1000 genomes]
rs9910252	1.00[EUR][1000 genomes]
rs9910451	0.81[ASW][hapmap]
rs9910902	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9913351	1.00[ASW][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs9914007	1.00[EUR][1000 genomes]
rs9914605	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9915023	1.00[EUR][1000 genomes]
rs9916070	0.91[LWK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]
rs9944467	1.00[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	esv3378293	chr17:59744117-60124899	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv916786	chr17:59890834-60103687	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	116 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	chr17:60018000-60072800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
2	chr17:60018000-60073400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr17:60018600-60072600	Strong transcription	Fetal Thymus	thymus
4	chr17:60018800-60073600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr17:60020400-60073200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr17:60020600-60073000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr17:60020800-60073800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr17:60021200-60097000	Strong transcription	Dnd41	blood
9	chr17:60021800-60073600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr17:60025400-60074200	Strong transcription	Liver	Liver
11	chr17:60025400-60107600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr17:60033000-60128400	Weak transcription	Stomach Mucosa	stomach
13	chr17:60034800-60072800	Strong transcription	Placenta	Placenta
14	chr17:60036000-60074000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr17:60036400-60070000	Strong transcription	Rectal Mucosa Donor 31	rectum
16	chr17:60042800-60105200	Weak transcription	Psoas Muscle	Psoas
17	chr17:60048400-60072800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr17:60048600-60074200	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr17:60048800-60097600	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr17:60050200-60100800	Weak transcription	Small Intestine	intestine
21	chr17:60051600-60073800	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr17:60051800-60073600	Strong transcription	Primary B cells from peripheral blood	blood
23	chr17:60052000-60070400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr17:60052600-60072800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr17:60052600-60073400	Strong transcription	Duodenum Mucosa	Duodenum
26	chr17:60053400-60070600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr17:60053600-60066400	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr17:60053600-60073600	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr17:60053800-60066600	Strong transcription	GM12878-XiMat	blood
30	chr17:60053800-60073200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr17:60054000-60074000	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr17:60054200-60072200	Strong transcription	Fetal Muscle Trunk	muscle
33	chr17:60055200-60066200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr17:60055200-60074000	Strong transcription	Primary T cells from cord blood	blood
35	chr17:60055400-60070200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr17:60055400-60072600	Strong transcription	Fetal Intestine Large	intestine
37	chr17:60055600-60072800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr17:60055600-60073800	Strong transcription	HUES6 Cell Line	embryonic stem cell
39	chr17:60055800-60072800	Strong transcription	HepG2	liver
40	chr17:60056000-60066000	Strong transcription	HSMM	muscle
41	chr17:60057600-60067800	Strong transcription	NH-A	brain
42	chr17:60057600-60072600	Strong transcription	Adipose Nuclei	Adipose
43	chr17:60058000-60066000	Strong transcription	Skeletal Muscle Female	skeletal muscle
44	chr17:60058600-60072200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr17:60058800-60068600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr17:60058800-60070000	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr17:60059000-60088000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr17:60059400-60072800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr17:60059800-60075200	Weak transcription	Fetal Heart	heart
50	chr17:60060400-60067000	Weak transcription	Brain Angular Gyrus	brain

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