Variant report

Variant	rs4880809
Chromosome Location	chr10:186795-186796
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	chr10:185579..190564-chr10:192316..195395,6	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10736951	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs10794721	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11250790	0.86[JPT][hapmap]
rs11250797	0.84[JPT][hapmap]
rs1476130	0.87[JPT][hapmap];0.96[YRI][hapmap]
rs2379049	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2436031	0.82[YRI][hapmap]
rs2448364	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.81[AMR][1000 genomes]
rs2448366	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.80[ASN][1000 genomes]
rs2448371	0.82[AMR][1000 genomes]
rs2448373	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2448384	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs2496275	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs2496278	0.87[JPT][hapmap]
rs4275539	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4331015	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4369322	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56335464	0.89[EUR][1000 genomes]
rs7089889	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7476951	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909028	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7919162	0.90[CHB][hapmap];0.93[JPT][hapmap];0.96[YRI][hapmap]
rs7919436	0.91[CHB][hapmap];0.92[JPT][hapmap];0.92[YRI][hapmap]
rs9419432	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9419493	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9419496	0.85[ASN][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:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:183000-188800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
2	chr10:183000-191200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:183000-192600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:183000-196400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr10:183200-187200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr10:183200-188000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr10:183200-188400	Weak transcription	Fetal Kidney	kidney
8	chr10:183200-188600	Weak transcription	Fetal Intestine Large	intestine
9	chr10:183200-192200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr10:183200-205400	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr10:183400-187200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr10:183400-188000	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr10:183400-188000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr10:183400-188000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr10:183400-188000	Weak transcription	Lung	lung
16	chr10:183400-188000	Weak transcription	Ovary	ovary
17	chr10:183400-188000	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr10:183400-188000	Weak transcription	Spleen	Spleen
19	chr10:183400-188200	Weak transcription	Duodenum Mucosa	Duodenum
20	chr10:183400-188400	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr10:183400-188600	Weak transcription	Brain Anterior Caudate	brain
22	chr10:183400-188600	Weak transcription	Brain Substantia Nigra	brain
23	chr10:183400-188600	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr10:183400-188800	Weak transcription	Brain Hippocampus Middle	brain
25	chr10:183400-194600	Weak transcription	Fetal Stomach	stomach
26	chr10:183400-194600	Weak transcription	Gastric	stomach
27	chr10:183400-199400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:183400-200800	Weak transcription	Thymus	Thymus
29	chr10:183600-187200	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr10:183600-188000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:183600-188200	Weak transcription	NHEK	skin
32	chr10:183600-188400	Weak transcription	Colon Smooth Muscle	Colon
33	chr10:183600-199000	Weak transcription	HSMM	muscle
34	chr10:183800-187200	Weak transcription	Primary T cells from cord blood	blood
35	chr10:183800-187200	Weak transcription	Fetal Intestine Small	intestine
36	chr10:183800-187400	Weak transcription	GM12878-XiMat	blood
37	chr10:183800-188200	Weak transcription	A549	lung
38	chr10:183800-189000	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr10:183800-191800	Weak transcription	Dnd41	blood
40	chr10:184000-188200	Weak transcription	Hela-S3	cervix
41	chr10:184200-188000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr10:184400-186800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr10:184400-188200	Weak transcription	Fetal Brain Female	brain
44	chr10:184400-188800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr10:184400-189800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr10:184400-191400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr10:184400-199600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr10:184400-200200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr10:184600-200000	Weak transcription	NHLF	lung
50	chr10:185000-187200	Weak transcription	Left Ventricle	heart

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