Variant report

Variant	rs16890768
Chromosome Location	chr6:38483167-38483168
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38480377..38484448-chr6:38485640..38487510,3	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12524226	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs12525647	0.83[CHB][hapmap]
rs12529875	0.83[CHB][hapmap]
rs13203189	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs13204248	0.83[CHB][hapmap]
rs13214868	0.84[CHB][hapmap]
rs13219695	0.83[CHB][hapmap]
rs13219887	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs16890751	1.00[CEU][hapmap]
rs17590777	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs2395700	0.84[CHB][hapmap]
rs4711549	0.81[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs58177962	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62397716	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38444600-38496200	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr6:38452400-38496600	Weak transcription	Primary B cells from cord blood	blood
3	chr6:38454400-38486400	Weak transcription	Primary T cells from cord blood	blood
4	chr6:38468600-38486400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:38471600-38484200	Weak transcription	Right Atrium	heart
6	chr6:38471600-38493200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:38472000-38493800	Weak transcription	Lung	lung
8	chr6:38476600-38499800	Weak transcription	Pancreas	Pancrea
9	chr6:38476800-38498800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:38477800-38498400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:38478000-38484800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:38478000-38484800	Weak transcription	Fetal Lung	lung
13	chr6:38478000-38485000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:38478000-38485000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr6:38478000-38485200	Weak transcription	Gastric	stomach
16	chr6:38478000-38494800	Weak transcription	Fetal Kidney	kidney
17	chr6:38478200-38484200	Weak transcription	Ovary	ovary
18	chr6:38478200-38484800	Weak transcription	NHDF-Ad	bronchial
19	chr6:38478400-38486200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr6:38479000-38509800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:38480400-38489800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:38480800-38486600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr6:38481600-38485000	Enhancers	Brain Anterior Caudate	brain
24	chr6:38482000-38484800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr6:38482200-38483200	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr6:38482200-38483600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:38482400-38483200	Enhancers	Brain Cingulate Gyrus	brain
28	chr6:38482400-38483200	Enhancers	Fetal Stomach	stomach
29	chr6:38482400-38483800	Enhancers	Colon Smooth Muscle	Colon
30	chr6:38482600-38485000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:38482600-38493800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr6:38482800-38483200	Enhancers	Brain Inferior Temporal Lobe	brain
33	chr6:38482800-38484800	Weak transcription	Small Intestine	intestine
34	chr6:38483000-38483200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:38483000-38483400	Enhancers	Cortex derived primary cultured neurospheres	brain

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