Variant report

Variant	rs7168416
Chromosome Location	chr15:40511430-40511431
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	chr15:40510756..40513568-chr15:40531401..40533088,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137843	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs11070254	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11070255	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12102172	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12385956	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13380113	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13380241	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1494533	0.81[AFR][1000 genomes]
rs1494534	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1801528	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1869906	1.00[EUR][1000 genomes]
rs28390245	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28417868	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28485685	1.00[EUR][1000 genomes]
rs28501335	1.00[EUR][1000 genomes]
rs28526743	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28561898	1.00[EUR][1000 genomes]
rs28565228	1.00[EUR][1000 genomes]
rs28606396	1.00[EUR][1000 genomes]
rs28637656	1.00[EUR][1000 genomes]
rs28637697	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28657938	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28668026	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28673302	1.00[EUR][1000 genomes]
rs28744626	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28750294	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28792493	1.00[EUR][1000 genomes]
rs28844897	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28869227	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35611758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55984256	1.00[EUR][1000 genomes]
rs56010221	1.00[EUR][1000 genomes]
rs56888636	1.00[EUR][1000 genomes]
rs57029027	1.00[EUR][1000 genomes]
rs58216655	1.00[EUR][1000 genomes]
rs58584688	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58870954	1.00[EUR][1000 genomes]
rs60743501	1.00[EUR][1000 genomes]
rs60889301	1.00[EUR][1000 genomes]
rs61579851	1.00[EUR][1000 genomes]
rs61678895	1.00[EUR][1000 genomes]
rs6492943	1.00[EUR][1000 genomes]
rs7164281	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7165233	1.00[EUR][1000 genomes]
rs7168197	1.00[EUR][1000 genomes]
rs7168394	1.00[EUR][1000 genomes]
rs7173239	1.00[EUR][1000 genomes]
rs7175153	1.00[EUR][1000 genomes]
rs7178873	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7182052	1.00[EUR][1000 genomes]
rs73377835	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73383123	1.00[EUR][1000 genomes]
rs73383129	1.00[EUR][1000 genomes]
rs73385108	1.00[EUR][1000 genomes]
rs73385110	1.00[EUR][1000 genomes]
rs73385112	1.00[EUR][1000 genomes]
rs73385114	1.00[EUR][1000 genomes]
rs73389487	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389489	1.00[EUR][1000 genomes]
rs73389492	1.00[EUR][1000 genomes]
rs73389507	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389520	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389531	1.00[EUR][1000 genomes]
rs73389536	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73389540	1.00[EUR][1000 genomes]
rs73390146	1.00[EUR][1000 genomes]
rs73390155	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390162	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390167	1.00[EUR][1000 genomes]
rs73390168	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73390187	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73392641	1.00[EUR][1000 genomes]
rs8023956	1.00[EUR][1000 genomes]
rs8026988	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8039298	1.00[EUR][1000 genomes]
rs8364	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9672591	1.00[EUR][1000 genomes]
rs9672893	1.00[EUR][1000 genomes]
rs9806126	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9806144	0.89[AMR][1000 genomes];1.00[EUR][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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS 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

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40453800-40525000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:40454000-40515200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr15:40454800-40524200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr15:40455400-40530400	Weak transcription	Fetal Brain Female	brain
5	chr15:40455600-40518200	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:40455600-40522200	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr15:40455600-40530400	Weak transcription	Brain Germinal Matrix	brain
8	chr15:40456200-40524000	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr15:40456200-40524000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:40471400-40517600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr15:40471400-40524400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:40473200-40517800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
13	chr15:40473600-40525200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:40475000-40526400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr15:40475400-40522600	Strong transcription	Dnd41	blood
16	chr15:40481800-40524400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:40483000-40526200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr15:40485400-40513800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr15:40485400-40527600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:40486600-40521000	Weak transcription	Placenta	Placenta
21	chr15:40487600-40518200	Strong transcription	H9 Cell Line	embryonic stem cell
22	chr15:40488200-40517000	Strong transcription	H1 Cell Line	embryonic stem cell
23	chr15:40490800-40519000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr15:40491000-40526600	Weak transcription	Primary B cells from cord blood	blood
25	chr15:40491200-40527200	Strong transcription	Fetal Thymus	thymus
26	chr15:40491600-40524600	Weak transcription	Fetal Heart	heart
27	chr15:40491800-40523200	Weak transcription	Esophagus	oesophagus
28	chr15:40492800-40524000	Weak transcription	Fetal Kidney	kidney
29	chr15:40492800-40530800	Weak transcription	Duodenum Mucosa	Duodenum
30	chr15:40493400-40527000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
31	chr15:40496600-40524800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr15:40497800-40517600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr15:40498200-40515600	Strong transcription	GM12878-XiMat	blood
34	chr15:40498800-40520600	Weak transcription	NHLF	lung
35	chr15:40502000-40521000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr15:40503400-40526600	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr15:40504400-40513600	Weak transcription	Fetal Intestine Small	intestine
38	chr15:40504400-40514000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr15:40504400-40514200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr15:40504400-40521600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr15:40504400-40526400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:40506600-40511800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr15:40506600-40512200	Weak transcription	Thymus	Thymus
44	chr15:40506800-40524400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr15:40508200-40514200	Strong transcription	Hela-S3	cervix
46	chr15:40508200-40514400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr15:40508200-40524600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr15:40508600-40514200	Weak transcription	Fetal Muscle Leg	muscle
49	chr15:40509200-40514200	Strong transcription	K562	blood
50	chr15:40509200-40517600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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