Variant report

Variant	rs28899193
Chromosome Location	chr6:110438821-110438822
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs28898599	0.88[YRI][hapmap]
rs28898604	0.88[YRI][hapmap]
rs28898613	0.88[YRI][hapmap]
rs28898624	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs28900374	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs28900375	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs28900381	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs28900383	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs28900389	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs34757826	0.86[AFR][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	nsv886535	chr6:110377006-110551463	Strong transcription Genic enhancers Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	esv2757188	chr6:110389926-110504680	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv2759462	chr6:110389926-110504680	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	esv1792799	chr6:110411065-110566597	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv886536	chr6:110426046-110502831	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110419000-110449600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:110419000-110461800	Weak transcription	HSMMtube	muscle
3	chr6:110419200-110449600	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:110423200-110440800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:110423200-110448400	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr6:110423400-110439000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:110423400-110445000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:110423400-110450000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:110423400-110459000	Weak transcription	Fetal Stomach	stomach
10	chr6:110423400-110459200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:110423400-110459200	Weak transcription	Aorta	Aorta
12	chr6:110424800-110443200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:110424800-110443200	Weak transcription	Ovary	ovary
14	chr6:110425000-110456400	Weak transcription	HUVEC	blood vessel
15	chr6:110425400-110440600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:110426800-110448000	Weak transcription	Pancreas	Pancrea
17	chr6:110427600-110459600	Weak transcription	NHEK	skin
18	chr6:110428200-110443200	Weak transcription	Fetal Brain Female	brain
19	chr6:110428200-110450000	Weak transcription	HepG2	liver
20	chr6:110428800-110443000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr6:110428800-110446000	Weak transcription	Primary B cells from cord blood	blood
22	chr6:110429000-110445200	Weak transcription	Hela-S3	cervix
23	chr6:110429800-110453600	Weak transcription	Liver	Liver
24	chr6:110429800-110459200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr6:110430000-110441400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr6:110430000-110443200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:110430000-110443200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:110430000-110443200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr6:110430000-110443600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr6:110430000-110446400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:110430000-110449800	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr6:110430000-110452200	Weak transcription	Primary hematopoietic stem cells	blood
33	chr6:110430200-110446000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr6:110430400-110450200	Weak transcription	NHDF-Ad	bronchial
35	chr6:110431400-110459200	Weak transcription	HSMM	muscle
36	chr6:110433200-110443000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr6:110433200-110443200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:110433600-110443000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr6:110435600-110443600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr6:110436200-110443000	Weak transcription	Brain Germinal Matrix	brain
41	chr6:110436400-110439600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:110436600-110449600	Weak transcription	Brain Anterior Caudate	brain
43	chr6:110436800-110443000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr6:110436800-110449600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:110437800-110439200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:110437800-110442400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr6:110438000-110443000	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr6:110438000-110443000	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr6:110438000-110449800	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr6:110438000-110449800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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