Variant report

Variant	rs2758909
Chromosome Location	chr6:39264495-39264496
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:39233505..39239976-chr6:39262109..39267318,6	MCF-7	breast:
2	chr6:39251247..39254688-chr6:39261897..39265141,3	K562	blood:
3	chr6:39243650..39250520-chr6:39262135..39271800,15	MCF-7	breast:
4	chr6:39181537..39183525-chr6:39264253..39266272,2	K562	blood:
5	chr6:39252986..39258546-chr6:39261978..39266984,8	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1005995	0.85[ASN][1000 genomes]
rs2758874	0.80[ASN][1000 genomes]
rs2758908	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2758912	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2815061	0.85[ASN][1000 genomes]
rs2815064	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815066	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs731419	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][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	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39257800-39265800	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr6:39258000-39265600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr6:39261400-39267400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr6:39262600-39270600	Weak transcription	Colonic Mucosa	Colon
5	chr6:39262800-39265400	Enhancers	Fetal Stomach	stomach
6	chr6:39263000-39265400	Enhancers	Placenta Amnion	Placenta Amnion
7	chr6:39263000-39266600	Enhancers	Placenta	Placenta
8	chr6:39263200-39265600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:39263200-39265600	Enhancers	Fetal Muscle Leg	muscle
10	chr6:39263400-39264600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:39263400-39264800	Enhancers	Adipose Nuclei	Adipose
12	chr6:39263400-39265200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
13	chr6:39263400-39265400	Enhancers	Fetal Lung	lung
14	chr6:39263400-39265600	Enhancers	Right Atrium	heart
15	chr6:39263400-39266000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
16	chr6:39263600-39266000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:39263600-39266200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:39263800-39264800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr6:39263800-39265200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:39263800-39266000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:39263800-39267000	Enhancers	Liver	Liver
22	chr6:39264000-39265000	Weak transcription	Ovary	ovary
23	chr6:39264000-39265600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr6:39264200-39265600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr6:39264200-39265800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:39264400-39264600	Enhancers	Esophagus	oesophagus
27	chr6:39264400-39264600	Weak transcription	Gastric	stomach
28	chr6:39264400-39264800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:39264400-39265200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:39264400-39265200	Enhancers	Fetal Brain Male	brain
31	chr6:39264400-39265600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:39264400-39266200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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