Variant report

Variant	rs73497516
Chromosome Location	chr6:87647282-87647283
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CGA-5	chr6:87647151-87647370	NONHSAT113886

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs61382598	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61742890	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73497519	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73497528	0.92[AFR][1000 genomes];1.00[AMR][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	nsv1018878	chr6:86778852-87691755	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1031639	chr6:86815397-87721507	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv1024751	chr6:87433199-87908721	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87646200-87647800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
2	chr6:87646400-87647600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
3	chr6:87646400-87647600	Active TSS	H9 Cell Line	embryonic stem cell
4	chr6:87646400-87647800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
5	chr6:87646400-87648000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
6	chr6:87646400-87648000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
7	chr6:87646600-87647400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:87646600-87647400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:87646600-87647400	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
10	chr6:87646600-87647400	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
11	chr6:87646600-87647400	Bivalent/Poised TSS	Brain Substantia Nigra	brain
12	chr6:87646600-87647400	Active TSS	Fetal Kidney	kidney
13	chr6:87646600-87647600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:87646600-87647600	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:87646600-87647600	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:87646600-87647600	Bivalent Enhancer	Primary B cells from peripheral blood	blood
17	chr6:87646600-87647600	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
18	chr6:87646600-87647600	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
19	chr6:87646600-87647600	Bivalent Enhancer	Placenta	Placenta
20	chr6:87646600-87647800	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
21	chr6:87646600-87647800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
22	chr6:87646600-87647800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
23	chr6:87646600-87647800	Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr6:87646600-87648000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
25	chr6:87646600-87648000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
26	chr6:87646600-87648000	Active TSS	Gastric	stomach
27	chr6:87646600-87648200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:87646600-87648800	Active TSS	Brain Angular Gyrus	brain
29	chr6:87646600-87648800	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
30	chr6:87646800-87647400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:87646800-87647400	Bivalent/Poised TSS	A549	lung
32	chr6:87646800-87647600	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:87646800-87647600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:87646800-87647600	Bivalent Enhancer	Fetal Heart	heart
35	chr6:87646800-87647600	Bivalent/Poised TSS	Fetal Intestine Large	intestine
36	chr6:87646800-87647600	Bivalent/Poised TSS	Fetal Lung	lung
37	chr6:87646800-87647600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
38	chr6:87646800-87647600	Active TSS	Placenta Amnion	Placenta Amnion
39	chr6:87646800-87647600	Bivalent Enhancer	Psoas Muscle	Psoas
40	chr6:87646800-87647600	Active TSS	Right Atrium	heart
41	chr6:87646800-87647800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
42	chr6:87646800-87647800	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
43	chr6:87646800-87647800	Bivalent Enhancer	Fetal Brain Male	brain
44	chr6:87646800-87648800	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr6:87647000-87647400	Flanking Bivalent TSS/Enh	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:87647000-87647400	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr6:87647000-87647400	Flanking Bivalent TSS/Enh	Breast Myoepithelial Primary Cells	Breast
48	chr6:87647000-87647400	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:87647000-87647400	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
50	chr6:87647000-87647400	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin01	Skin

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