Variant report

Variant	rs35209041
Chromosome Location	chr19:19726018-19726019
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:19724892..19728058-chr19:19728649..19732135,4	MCF-7	breast:
2	chr19:19724494..19726787-chr19:19732660..19734817,2	MCF-7	breast:
3	chr19:19720475..19726330-chr19:19736608..19741872,9	MCF-7	breast:
4	chr19:19660178..19662457-chr19:19724414..19727027,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105717	Chromatin interaction
ENSG00000064547	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12611058	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12974028	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12977917	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12981270	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12982628	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12985142	0.83[EUR][1000 genomes]
rs1476459	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs33982830	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34096655	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34316070	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34316527	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34324119	0.85[EUR][1000 genomes]
rs34424437	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35437712	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35553578	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35842591	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56083851	0.88[EUR][1000 genomes]
rs62134460	0.87[EUR][1000 genomes]
rs62137783	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62137816	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62137820	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62137822	0.98[EUR][1000 genomes]
rs7247165	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73004920	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs750216	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][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	esv1828240	chr19:19591146-19900900	Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv1063273	chr19:19591146-20061367	ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19706600-19728200	Weak transcription	Fetal Brain Male	brain
2	chr19:19707600-19728600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr19:19713800-19728000	Weak transcription	Brain Germinal Matrix	brain
4	chr19:19714000-19728800	Weak transcription	Brain Anterior Caudate	brain
5	chr19:19717400-19728000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr19:19717400-19728200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr19:19717400-19728600	Weak transcription	Esophagus	oesophagus
8	chr19:19717600-19726600	Weak transcription	Dnd41	blood
9	chr19:19718000-19728000	Weak transcription	Primary T cells from cord blood	blood
10	chr19:19719200-19726400	Weak transcription	Fetal Lung	lung
11	chr19:19719600-19729000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr19:19719800-19726600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr19:19719800-19728600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr19:19719800-19728600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr19:19719800-19728800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr19:19720000-19726600	Weak transcription	Fetal Brain Female	brain
17	chr19:19720000-19728000	Weak transcription	Fetal Thymus	thymus
18	chr19:19720000-19728400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr19:19722000-19728000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr19:19723600-19728400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr19:19724200-19726200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr19:19724400-19726800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr19:19724400-19727200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr19:19724400-19727200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
25	chr19:19724400-19728000	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr19:19724400-19728200	Enhancers	Primary T cells fromperipheralblood	blood
27	chr19:19724400-19728600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr19:19724600-19727800	Enhancers	Primary T killer memory cells from peripheral blood	blood
29	chr19:19724600-19728600	Weak transcription	Fetal Stomach	stomach
30	chr19:19724600-19729000	Weak transcription	Osteobl	bone
31	chr19:19724800-19726600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr19:19724800-19726800	Enhancers	Hela-S3	cervix
33	chr19:19724800-19728000	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr19:19724800-19728400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr19:19724800-19728400	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr19:19724800-19728400	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr19:19724800-19728600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr19:19724800-19728600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr19:19724800-19728600	Weak transcription	Fetal Muscle Leg	muscle
40	chr19:19724800-19728800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr19:19724800-19728800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr19:19724800-19728800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
43	chr19:19725000-19728000	Weak transcription	Stomach Mucosa	stomach
44	chr19:19725000-19728000	Weak transcription	Thymus	Thymus
45	chr19:19725000-19728600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr19:19725000-19728600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr19:19725000-19728600	Weak transcription	Gastric	stomach
48	chr19:19725000-19728600	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr19:19725000-19728800	Weak transcription	Fetal Kidney	kidney
50	chr19:19725000-19728800	Weak transcription	HSMM	muscle

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