Variant report

Variant	rs16881580
Chromosome Location	chr7:47760312-47760313
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:47758562..47761407-chr7:47764047..47766786,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12374833	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1542322	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17172895	0.83[ASN][1000 genomes]
rs17172896	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17172897	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17172898	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17544941	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17627420	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55683481	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55745922	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56017135	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56024530	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57720210	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59963947	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60404365	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73093024	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093028	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093030	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093036	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093039	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093041	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093043	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093044	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093048	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093062	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093065	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093067	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73094741	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73094761	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73094779	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73094780	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73094782	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73094784	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73102790	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73102792	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73102794	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73102797	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73102799	0.85[EUR][1000 genomes]
rs73104703	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73104705	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73104711	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73104712	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73104714	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73104717	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73104718	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7789757	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7790043	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7795201	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7805780	0.83[ASN][1000 genomes]
rs7808100	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026223	chr7:47560728-48243287	Genic enhancers Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv888003	chr7:47694270-47907214	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1018608	chr7:47708525-47831535	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1022906	chr7:47709936-47831535	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1015163	chr7:47734913-47832389	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv538831	chr7:47734913-47832389	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:47750400-47764000	Weak transcription	A549	lung
2	chr7:47758600-47760800	Enhancers	Fetal Intestine Small	intestine
3	chr7:47758800-47760800	Enhancers	Fetal Intestine Large	intestine
4	chr7:47759000-47760600	Enhancers	Duodenum Smooth Muscle	Duodenum
5	chr7:47759000-47760800	Enhancers	Duodenum Mucosa	Duodenum
6	chr7:47759000-47760800	Enhancers	Fetal Heart	heart
7	chr7:47759000-47761400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr7:47759200-47760600	Enhancers	Fetal Lung	lung
9	chr7:47759200-47760800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr7:47759200-47760800	Enhancers	Colon Smooth Muscle	Colon
11	chr7:47759200-47761000	Enhancers	Fetal Stomach	stomach
12	chr7:47759200-47761000	Enhancers	Ovary	ovary
13	chr7:47759200-47762400	Enhancers	HepG2	liver
14	chr7:47759400-47761400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr7:47759600-47760400	Enhancers	Left Ventricle	heart
16	chr7:47759600-47760600	Enhancers	Placenta	Placenta
17	chr7:47759600-47760800	Enhancers	Small Intestine	intestine
18	chr7:47759600-47760800	Enhancers	Stomach Smooth Muscle	stomach
19	chr7:47759600-47761000	Enhancers	Fetal Muscle Leg	muscle
20	chr7:47759600-47761000	Enhancers	Pancreas	Pancrea
21	chr7:47759600-47761000	Enhancers	Rectal Smooth Muscle	rectum
22	chr7:47759600-47761600	Enhancers	Fetal Muscle Trunk	muscle
23	chr7:47759600-47767000	Enhancers	Primary B cells from peripheral blood	blood
24	chr7:47759800-47760400	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr7:47759800-47761000	Enhancers	GM12878-XiMat	blood
26	chr7:47759800-47761200	Enhancers	Primary B cells from cord blood	blood
27	chr7:47759800-47761200	Enhancers	Spleen	Spleen
28	chr7:47760000-47760400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr7:47760000-47760400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr7:47760000-47760400	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr7:47760000-47760400	Enhancers	Aorta	Aorta
32	chr7:47760000-47760400	Enhancers	Fetal Brain Female	brain
33	chr7:47760200-47760400	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr7:47760200-47760400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr7:47760200-47760400	Enhancers	Esophagus	oesophagus
36	chr7:47760200-47760400	Enhancers	Fetal Kidney	kidney
37	chr7:47760200-47760400	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr7:47760200-47760600	Enhancers	NHLF	lung
39	chr7:47760200-47761000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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