Variant report

Variant	rs7739592
Chromosome Location	chr6:54584702-54584703
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:54583583..54586469-chr6:54727325..54729845,2	MCF-7	breast:
2	chr6:54583465..54585924-chr6:54724133..54726618,2	MCF-7	breast:
3	chr6:54568299..54570747-chr6:54582453..54584898,3	MCF-7	breast:
4	chr6:54561293..54570100-chr6:54582505..54590247,14	MCF-7	breast:
5	chr6:54574192..54576279-chr6:54583056..54585185,2	MCF-7	breast:
6	chr6:54580831..54596896-chr6:54704751..54716103,89	MCF-7	breast:
7	chr6:54582065..54584949-chr6:54722187..54724387,3	MCF-7	breast:
8	chr6:54577593..54590845-chr6:54708062..54715554,67	MCF-7	breast:
9	chr6:54582003..54585202-chr6:54737626..54739872,3	MCF-7	breast:
10	chr6:54582713..54585752-chr6:54741876..54745709,4	MCF-7	breast:
11	chr6:54582865..54585119-chr6:54718425..54721186,2	MCF-7	breast:
12	chr6:54559803..54567776-chr6:54579525..54585377,11	MCF-7	breast:
13	chr6:54581587..54585941-chr6:54586924..54591451,7	MCF-7	breast:
14	chr6:54570566..54573467-chr6:54582462..54585489,3	MCF-7	breast:

No data

No data

No data

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

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12198783	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12208446	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12209646	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3907684	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66999431	0.90[ASN][1000 genomes]
rs6923146	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9474982	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9474983	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2654510	chr6:54583570-54585063	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54582400-54585000	Enhancers	Fetal Lung	lung
2	chr6:54583000-54584800	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr6:54583200-54585400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:54583400-54584800	Enhancers	Fetal Kidney	kidney
5	chr6:54583400-54585000	Enhancers	Fetal Intestine Small	intestine
6	chr6:54583400-54585200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:54583600-54594200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:54583800-54584800	Weak transcription	Stomach Mucosa	stomach
9	chr6:54583800-54585800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:54583800-54586600	Weak transcription	NHEK	skin
11	chr6:54584000-54585200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr6:54584000-54585800	Weak transcription	Fetal Intestine Large	intestine
13	chr6:54584000-54586600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:54584400-54584800	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr6:54584600-54585000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:54584600-54585000	Weak transcription	Fetal Brain Female	brain
17	chr6:54584600-54586400	Weak transcription	HMEC	breast
18	chr6:54584600-54586600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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