Variant report

Variant	rs3798927
Chromosome Location	chr6:161607372-161607373
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	chr6:161590670..161592878-chr6:161605980..161608609,2	MCF-7	breast:
2	chr6:161605475..161607777-chr6:161609671..161612543,2	K562	blood:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10945719	0.82[CEU][hapmap];0.87[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11756131	0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12209184	0.92[YRI][hapmap];0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs3778223	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778224	0.97[ASN][1000 genomes]
rs3798928	0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs3798929	0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.97[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	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv949397	chr6:161592100-161812932	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv2752091	chr6:161592100-161855785	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	esv33824	chr6:161603136-161608905	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161585600-161626000	Weak transcription	Right Atrium	heart
2	chr6:161590000-161611600	Weak transcription	HSMMtube	muscle
3	chr6:161590200-161607600	Weak transcription	HSMM	muscle
4	chr6:161591400-161626200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr6:161591600-161615400	Weak transcription	Fetal Heart	heart
6	chr6:161592000-161609600	Weak transcription	Fetal Brain Male	brain
7	chr6:161599800-161647600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:161600200-161610000	Weak transcription	Primary T cells from cord blood	blood
9	chr6:161600400-161619400	Weak transcription	Fetal Lung	lung
10	chr6:161600400-161626000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:161600600-161613000	Weak transcription	Primary B cells from cord blood	blood
12	chr6:161600600-161613800	Weak transcription	Fetal Brain Female	brain
13	chr6:161600800-161607600	Weak transcription	Ovary	ovary
14	chr6:161600800-161608400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:161601400-161608000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr6:161601400-161610400	Weak transcription	Aorta	Aorta
17	chr6:161601400-161636200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:161601800-161609400	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr6:161601800-161609800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr6:161602000-161613800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr6:161602000-161619400	Weak transcription	Brain Germinal Matrix	brain
22	chr6:161602400-161607400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:161602400-161609800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:161602400-161613800	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr6:161602600-161607400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr6:161602800-161618600	Weak transcription	Fetal Muscle Leg	muscle
27	chr6:161602800-161626000	Weak transcription	Gastric	stomach
28	chr6:161603200-161607400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr6:161604000-161609600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr6:161604000-161610200	Weak transcription	Fetal Muscle Trunk	muscle
31	chr6:161604200-161607600	Weak transcription	Lung	lung
32	chr6:161604400-161607400	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr6:161604400-161608800	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:161604400-161609800	Weak transcription	Brain Hippocampus Middle	brain
35	chr6:161604800-161608600	Strong transcription	Fetal Stomach	stomach
36	chr6:161605000-161607800	Strong transcription	Cortex derived primary cultured neurospheres	brain
37	chr6:161605000-161608400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:161605200-161610200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr6:161605200-161612600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr6:161605400-161610200	Weak transcription	Brain Substantia Nigra	brain
41	chr6:161606000-161607400	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr6:161606200-161615400	Weak transcription	Fetal Kidney	kidney
43	chr6:161606600-161607400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr6:161606600-161608400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:161606800-161607400	Enhancers	NH-A	brain
46	chr6:161606800-161607800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr6:161606800-161607800	Enhancers	NHLF	lung
48	chr6:161606800-161608000	Enhancers	HMEC	breast
49	chr6:161606800-161608400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr6:161606800-161608400	Enhancers	Primary hematopoietic stem cells short term culture	blood

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