Variant report

Variant	rs10499109
Chromosome Location	chr6:121637802-121637803
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	chr6:121635999..121638850-chr6:121643981..121646181,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10457414	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10457415	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10499106	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11153999	0.83[CHB][hapmap]
rs11154001	1.00[CHB][hapmap]
rs11154005	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11154011	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11154012	1.00[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.85[TSI][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11759795	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12191616	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12198421	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12206641	1.00[ASW][hapmap];0.85[GIH][hapmap];0.90[MEX][hapmap];0.82[MKK][hapmap]
rs12212646	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17644324	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.80[TSI][hapmap];0.82[ASN][1000 genomes]
rs7742017	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7745023	1.00[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023384	chr6:121235867-121683448	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830789	chr6:121581450-121732320	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1017944	chr6:121600538-121644362	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121586400-121655000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:121588400-121655200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:121588800-121642000	Weak transcription	Left Ventricle	heart
4	chr6:121589000-121654200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:121589200-121655000	Weak transcription	Fetal Stomach	stomach
6	chr6:121594200-121654800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:121604000-121645200	Weak transcription	Fetal Kidney	kidney
8	chr6:121604400-121642000	Weak transcription	Primary B cells from cord blood	blood
9	chr6:121604800-121653000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr6:121606600-121655000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:121611000-121640400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:121611200-121655000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:121613400-121640400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr6:121614200-121640400	Weak transcription	Brain Hippocampus Middle	brain
15	chr6:121615600-121655000	Weak transcription	Pancreas	Pancrea
16	chr6:121616200-121655000	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:121617200-121651600	Weak transcription	GM12878-XiMat	blood
18	chr6:121619000-121640400	Weak transcription	Brain Anterior Caudate	brain
19	chr6:121620200-121640400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:121622200-121654600	Weak transcription	Fetal Thymus	thymus
21	chr6:121622600-121655000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr6:121622800-121640400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr6:121622800-121654800	Weak transcription	Brain Germinal Matrix	brain
24	chr6:121624200-121644800	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr6:121628200-121640400	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr6:121629800-121648400	Weak transcription	Brain Substantia Nigra	brain
27	chr6:121630600-121651600	Weak transcription	K562	blood
28	chr6:121631800-121644800	Weak transcription	HSMMtube	muscle
29	chr6:121632000-121640400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:121632000-121640400	Weak transcription	NH-A	brain
31	chr6:121632000-121640400	Weak transcription	Osteobl	bone
32	chr6:121632000-121654200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:121632200-121640400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:121632200-121641600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:121632200-121653800	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr6:121632200-121654200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr6:121632200-121655000	Weak transcription	HSMM	muscle
38	chr6:121632400-121640400	Weak transcription	Brain Angular Gyrus	brain
39	chr6:121632400-121649800	Weak transcription	NHLF	lung
40	chr6:121632400-121654600	Weak transcription	HMEC	breast
41	chr6:121632800-121655000	Weak transcription	Lung	lung
42	chr6:121633200-121639600	Strong transcription	Dnd41	blood
43	chr6:121633400-121638000	Weak transcription	Primary B cells from peripheral blood	blood
44	chr6:121633800-121643200	Weak transcription	Fetal Lung	lung
45	chr6:121634000-121644200	Weak transcription	Gastric	stomach
46	chr6:121634600-121654800	Weak transcription	Fetal Brain Male	brain
47	chr6:121635000-121653800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:121635200-121655200	Weak transcription	Aorta	Aorta
49	chr6:121635600-121642200	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr6:121635800-121640400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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