Variant report

Variant	rs6875527
Chromosome Location	chr5:74999398-74999399
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:74998769..75000533-chr5:75008112..75009856,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152359	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10942741	0.88[AFR][1000 genomes]
rs16872788	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4640771	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6873350	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7715152	0.90[AFR][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	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv518475	chr5:74863041-75411804	Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats 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	esv1850196	chr5:74890618-75138443	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv830353	chr5:74961520-75152609	Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:74965200-75011800	Weak transcription	Brain Germinal Matrix	brain
2	chr5:74965400-75012400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:74965400-75012400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr5:74965400-75012400	Weak transcription	Right Ventricle	heart
5	chr5:74965600-75010400	Weak transcription	Gastric	stomach
6	chr5:74965600-75011400	Weak transcription	Small Intestine	intestine
7	chr5:74971200-75012400	Weak transcription	Aorta	Aorta
8	chr5:74971200-75012400	Weak transcription	Brain Substantia Nigra	brain
9	chr5:74979000-75003800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr5:74980000-75012200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr5:74981400-74999600	Weak transcription	Fetal Intestine Small	intestine
12	chr5:74981400-75002600	Weak transcription	Pancreas	Pancrea
13	chr5:74984200-75012400	Weak transcription	Brain Cingulate Gyrus	brain
14	chr5:74986800-75000000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr5:74986800-75005800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr5:74987800-75002600	Weak transcription	Primary hematopoietic stem cells	blood
17	chr5:74990000-75012000	Weak transcription	HSMMtube	muscle
18	chr5:74990000-75012400	Weak transcription	Esophagus	oesophagus
19	chr5:74992000-75012400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr5:74992400-75005800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr5:74992600-75012600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr5:74996400-75006400	Weak transcription	Stomach Mucosa	stomach
23	chr5:74996800-75012400	Weak transcription	Fetal Brain Male	brain
24	chr5:74997600-74999400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr5:74997600-74999600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr5:74997600-75000600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr5:74997600-75000600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr5:74997600-75000600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr5:74997600-75000800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr5:74997600-75000800	Strong transcription	Primary neutrophils fromperipheralblood	blood
31	chr5:74997600-75000800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr5:74997600-75001000	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr5:74997600-75001000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr5:74997600-75001000	Strong transcription	Fetal Thymus	thymus
35	chr5:74997600-75001200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr5:74997600-75001200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr5:74997600-75001200	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr5:74997600-75001200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr5:74997600-75001200	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr5:74997600-75001200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
41	chr5:74997600-75001200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr5:74997600-75001200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr5:74997600-75001200	Strong transcription	Placenta	Placenta
44	chr5:74997600-75001400	Strong transcription	Primary T cells from cord blood	blood
45	chr5:74997600-75001400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr5:74997600-75001600	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr5:74997600-75001600	Strong transcription	Liver	Liver
48	chr5:74997600-75001800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr5:74997600-75003200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr5:74997600-75004200	Strong transcription	Primary monocytes fromperipheralblood	blood

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