Variant report

Variant	rs9480539
Chromosome Location	chr6:151020709-151020710
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:150856840..150859421-chr6:151018731..151021434,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1466725	0.86[AFR][1000 genomes]
rs1466726	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73608736	0.83[AMR][1000 genomes]
rs7775405	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9478785	0.86[AFR][1000 genomes]
rs9480537	0.84[AFR][1000 genomes]
rs9480538	0.86[AFR][1000 genomes]
rs9480542	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9480543	1.00[ASN][1000 genomes]
rs9480544	1.00[ASN][1000 genomes]
rs9480545	1.00[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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv966635	chr6:151018787-151025050	Weak transcription Enhancers Genic enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:151009000-151021200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:151012200-151023800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:151014600-151021000	Enhancers	Primary B cells from peripheral blood	blood
4	chr6:151015200-151033200	Weak transcription	Right Atrium	heart
5	chr6:151015400-151025600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:151017600-151023800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:151017600-151029200	Weak transcription	Lung	lung
8	chr6:151017800-151025200	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr6:151017800-151025600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:151017800-151027200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:151018600-151021200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:151018800-151023800	Weak transcription	Fetal Thymus	thymus
13	chr6:151018800-151024000	Weak transcription	Placenta	Placenta
14	chr6:151018800-151028600	Weak transcription	Adipose Nuclei	Adipose
15	chr6:151019000-151021200	Weak transcription	Fetal Stomach	stomach
16	chr6:151019000-151021400	Weak transcription	Thymus	Thymus
17	chr6:151019000-151033000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:151019000-151033200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:151019000-151035200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr6:151019400-151023600	Weak transcription	Brain Substantia Nigra	brain
21	chr6:151020400-151022000	Enhancers	Spleen	Spleen
22	chr6:151020600-151020800	Enhancers	Brain Hippocampus Middle	brain
23	chr6:151020600-151020800	Enhancers	Esophagus	oesophagus
24	chr6:151020600-151020800	Enhancers	Left Ventricle	heart
25	chr6:151020600-151021400	Genic enhancers	Primary B cells from cord blood	blood
26	chr6:151020600-151021600	Enhancers	Fetal Muscle Leg	muscle

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