Variant report

Variant	rs7919991
Chromosome Location	chr10:197808-197809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:179114..184532-chr10:197541..200873,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000015171	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1367896	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1476129	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2007293	0.84[AMR][1000 genomes]
rs2436024	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs2436025	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2448365	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2448369	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs2448374	0.83[AMR][1000 genomes]
rs2448375	0.80[AMR][1000 genomes]
rs2448382	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2496274	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2496277	0.87[AMR][1000 genomes]
rs2496279	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs3001994	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs3132006	0.83[AMR][1000 genomes]
rs4275539	0.81[AFR][1000 genomes]
rs4390277	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4469806	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4469807	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4504990	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4537685	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4593933	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs4600135	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs4880517	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs58496617	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6560723	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs7081782	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7478542	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7893922	0.84[AMR][1000 genomes]
rs7898275	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7905732	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7910845	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7918734	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs9329277	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9329281	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs9419419	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs9419433	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9419435	0.82[AFR][1000 genomes]
rs9419436	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs9419499	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531919	chr10:60001-668649	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1040332	chr10:72797-244561	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1044775	chr10:72797-250662	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1047868	chr10:72797-259003	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1048232	chr10:72797-274675	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:183200-205400	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr10:183400-199400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:183400-200800	Weak transcription	Thymus	Thymus
4	chr10:183600-199000	Weak transcription	HSMM	muscle
5	chr10:184400-199600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:184400-200200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr10:184600-200000	Weak transcription	NHLF	lung
8	chr10:185200-198000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr10:186200-199800	Weak transcription	Right Ventricle	heart
10	chr10:188000-200400	Weak transcription	Primary B cells from cord blood	blood
11	chr10:188400-199600	Weak transcription	Ovary	ovary
12	chr10:188400-199600	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:188800-202600	Weak transcription	A549	lung
14	chr10:189000-204000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr10:189000-208800	Weak transcription	Small Intestine	intestine
16	chr10:189200-199800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr10:189200-199800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr10:189200-201800	Weak transcription	Brain Hippocampus Middle	brain
19	chr10:189400-200200	Weak transcription	Fetal Heart	heart
20	chr10:190400-200200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr10:190400-215200	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr10:190600-203200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr10:190600-212800	Weak transcription	Left Ventricle	heart
24	chr10:191400-199800	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr10:194000-199800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr10:194000-211400	Weak transcription	Fetal Lung	lung
27	chr10:194200-228200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr10:194600-210400	Weak transcription	Primary T cells from cord blood	blood
29	chr10:194800-200200	Weak transcription	Gastric	stomach
30	chr10:194800-206200	Weak transcription	Pancreas	Pancrea
31	chr10:194800-212600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr10:195400-207000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr10:196400-206200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr10:196800-215000	Weak transcription	Fetal Intestine Large	intestine
35	chr10:197000-200800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr10:197000-209600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr10:197200-200000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr10:197200-200200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr10:197400-209200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr10:197400-210400	Weak transcription	Primary hematopoietic stem cells	blood
41	chr10:197400-211200	Weak transcription	Fetal Muscle Trunk	muscle
42	chr10:197800-219800	Weak transcription	HUVEC	blood vessel

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