Variant report

Variant	rs9380024
Chromosome Location	chr6:27830354-27830355
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	chr6:26171577..26173697-chr6:27830155..27831800,2	MCF-7	breast:
2	chr6:27829699..27832078-chr8:101028376..101031173,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10484402	0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs10946943	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs1157432	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs12055685	0.93[CHB][hapmap];0.85[JPT][hapmap]
rs1565334	0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs16867916	0.84[CHB][hapmap];0.92[JPT][hapmap]
rs16867976	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs16867983	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs16868156	0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs17708949	0.81[EUR][1000 genomes]
rs1844435	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2130355	0.87[EUR][1000 genomes]
rs2130356	0.87[EUR][1000 genomes]
rs3175123	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34452669	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3800321	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6906653	0.93[CHB][hapmap];0.85[JPT][hapmap]
rs6920044	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs9295751	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9348777	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs9348780	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9357044	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs9357048	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs9357053	0.87[EUR][1000 genomes]
rs9357054	0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9366707	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9366708	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9368524	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs9368538	0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs9380001	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs9380022	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9393864	1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs9393865	1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs9393873	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
3	nsv1017440	chr6:27734824-27864277	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	370 gene(s)	inside rSNPs	diseases
4	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
5	nsv883512	chr6:27748631-27969004	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
6	nsv601208	chr6:27810626-27969004	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	237 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27808000-27831800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:27808200-27830600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:27822800-27831800	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:27824000-27831800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:27829000-27831800	Weak transcription	Right Atrium	heart
6	chr6:27830000-27830400	Enhancers	GM12878-XiMat	blood
7	chr6:27830000-27831000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr6:27830000-27831000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr6:27830000-27831200	Enhancers	HepG2	liver
10	chr6:27830000-27831800	Weak transcription	Dnd41	blood
11	chr6:27830200-27830400	Enhancers	K562	blood
12	chr6:27830200-27830600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:27830200-27830800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:27830200-27831400	Enhancers	Hela-S3	cervix
15	chr6:27830200-27831600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:27830200-27831600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:27830200-27831800	Weak transcription	Primary B cells from cord blood	blood

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