Variant report

Variant	rs35446819
Chromosome Location	chr15:50602067-50602068
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50474513..50476757-chr15:50599971..50603142,3	MCF-7	breast:
2	chr15:50526299..50528737-chr15:50600788..50602895,2	MCF-7	breast:
3	chr15:50600709..50603371-chr15:50645671..50647949,3	MCF-7	breast:
4	chr15:50601193..50602904-chr15:50644930..50647260,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104064	Chromatin interaction
ENSG00000104043	Chromatin interaction
ENSG00000244879	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs11070766	0.91[ASN][1000 genomes]
rs11070768	0.91[ASN][1000 genomes]
rs11629603	0.87[ASN][1000 genomes]
rs11630045	0.96[ASN][1000 genomes]
rs11630063	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11631197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11631985	0.87[ASN][1000 genomes]
rs11632019	0.91[ASN][1000 genomes]
rs11632703	0.91[ASN][1000 genomes]
rs11636564	0.91[ASN][1000 genomes]
rs11636908	0.96[ASN][1000 genomes]
rs11637901	0.87[ASN][1000 genomes]
rs11637975	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11638432	0.91[ASN][1000 genomes]
rs11638564	0.87[ASN][1000 genomes]
rs11639406	0.87[ASN][1000 genomes]
rs11852487	0.91[ASN][1000 genomes]
rs11853236	0.91[ASN][1000 genomes]
rs11855823	0.91[ASN][1000 genomes]
rs12902318	0.87[ASN][1000 genomes]
rs12904469	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12904711	0.90[EUR][1000 genomes]
rs12906304	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12908591	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12909337	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12910368	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12910586	0.91[ASN][1000 genomes]
rs12912679	0.91[ASN][1000 genomes]
rs12912969	0.87[ASN][1000 genomes]
rs12923	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1645	0.87[ASN][1000 genomes]
rs16963604	0.91[ASN][1000 genomes]
rs16963612	0.91[ASN][1000 genomes]
rs17508371	0.96[ASN][1000 genomes]
rs1972700	0.87[ASN][1000 genomes]
rs2033115	0.87[ASN][1000 genomes]
rs2081628	0.87[ASN][1000 genomes]
rs28372114	0.91[ASN][1000 genomes]
rs28408662	0.87[ASN][1000 genomes]
rs28451583	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28453939	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28531946	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28534445	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28609286	0.91[ASN][1000 genomes]
rs28669213	0.96[ASN][1000 genomes]
rs28688566	0.87[ASN][1000 genomes]
rs28690939	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28715646	0.87[ASN][1000 genomes]
rs28716586	0.87[ASN][1000 genomes]
rs28719982	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34143694	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34197276	0.91[ASN][1000 genomes]
rs34312018	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34405772	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs34590486	0.87[ASN][1000 genomes]
rs35000991	0.87[ASN][1000 genomes]
rs35013067	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35024305	0.91[ASN][1000 genomes]
rs35033384	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs35168369	0.87[ASN][1000 genomes]
rs35354250	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35453213	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4774559	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4775872	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4775873	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4775874	0.91[ASN][1000 genomes]
rs4775875	0.91[ASN][1000 genomes]
rs4775876	0.91[ASN][1000 genomes]
rs4775877	0.87[ASN][1000 genomes]
rs526045	0.87[ASN][1000 genomes]
rs526952	0.94[AFR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59514998	0.81[AMR][1000 genomes]
rs62022571	0.84[ASN][1000 genomes]
rs7163457	0.87[ASN][1000 genomes]
rs7164375	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7164377	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7164798	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7173127	0.96[ASN][1000 genomes]
rs7175150	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7176792	0.91[ASN][1000 genomes]
rs7183422	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73399285	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8024514	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8025367	0.87[ASN][1000 genomes]
rs8026571	0.87[ASN][1000 genomes]
rs8027367	0.87[ASN][1000 genomes]
rs8030952	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034597	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034615	0.87[ASN][1000 genomes]
rs8036354	0.88[ASN][1000 genomes]
rs8042053	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8043475	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1045456	chr15:50592472-51019873	Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	121 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50570400-50606600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr15:50580400-50605000	Weak transcription	Fetal Heart	heart
3	chr15:50580800-50638400	Weak transcription	NHEK	skin
4	chr15:50589800-50602600	Weak transcription	Gastric	stomach
5	chr15:50593400-50602400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:50593600-50602400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:50593600-50605200	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:50594000-50608400	Weak transcription	Duodenum Mucosa	Duodenum
9	chr15:50594000-50610200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:50594200-50603600	Weak transcription	NH-A	brain
11	chr15:50594200-50608400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr15:50594600-50610400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr15:50594800-50604400	Weak transcription	Colon Smooth Muscle	Colon
14	chr15:50596400-50623400	Weak transcription	Aorta	Aorta
15	chr15:50596600-50608000	Weak transcription	Liver	Liver
16	chr15:50596800-50611400	Weak transcription	Right Atrium	heart
17	chr15:50597000-50628600	Weak transcription	Fetal Stomach	stomach
18	chr15:50599200-50602200	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr15:50600600-50603800	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr15:50600600-50610400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr15:50600600-50610400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr15:50600800-50602200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:50600800-50602400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr15:50600800-50604200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr15:50600800-50604200	Weak transcription	Osteobl	bone
26	chr15:50600800-50604800	Weak transcription	A549	lung
27	chr15:50600800-50605400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr15:50600800-50607800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr15:50600800-50608000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr15:50600800-50608200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr15:50600800-50608200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr15:50600800-50608200	Weak transcription	Adipose Nuclei	Adipose
33	chr15:50600800-50608200	Weak transcription	Hela-S3	cervix
34	chr15:50600800-50610200	Weak transcription	Primary T cells from cord blood	blood
35	chr15:50600800-50610200	Weak transcription	Pancreas	Pancrea
36	chr15:50600800-50610400	Weak transcription	Primary hematopoietic stem cells	blood
37	chr15:50600800-50610600	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr15:50600800-50610800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr15:50600800-50610800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr15:50600800-50612800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr15:50600800-50613600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:50600800-50617200	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr15:50600800-50618600	Weak transcription	Fetal Intestine Large	intestine
44	chr15:50600800-50623200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr15:50600800-50629400	Weak transcription	Placenta	Placenta
46	chr15:50600800-50631200	Weak transcription	Left Ventricle	heart
47	chr15:50600800-50635400	Weak transcription	HepG2	liver
48	chr15:50600800-50641400	Weak transcription	HSMM	muscle
49	chr15:50600800-50641600	Weak transcription	Fetal Kidney	kidney
50	chr15:50600800-50643000	Weak transcription	Fetal Thymus	thymus

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