Variant report

Variant	rs56143259
Chromosome Location	chr6:25315753-25315754
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:25314031..25316618-chr6:25318937..25320645,2	MCF-7	breast:
2	chr6:25314690..25316229-chr6:25317879..25319908,2	K562	blood:
3	chr6:25315748..25318380-chr6:25321578..25323806,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs55798209	0.83[EUR][1000 genomes]
rs56000982	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57438642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6929432	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6929831	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6936496	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs73392388	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73392397	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394138	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73396160	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73396172	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7758244	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];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	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25305000-25324400	Weak transcription	Left Ventricle	heart
2	chr6:25306600-25331400	Weak transcription	Spleen	Spleen
3	chr6:25310200-25316800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:25310400-25319400	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr6:25311600-25317200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:25311600-25317200	Enhancers	Fetal Lung	lung
7	chr6:25312000-25324200	Weak transcription	Esophagus	oesophagus
8	chr6:25312000-25324200	Weak transcription	Pancreas	Pancrea
9	chr6:25312200-25316000	Weak transcription	Gastric	stomach
10	chr6:25313400-25329800	Weak transcription	Primary T cells from cord blood	blood
11	chr6:25313600-25316200	Enhancers	Fetal Brain Male	brain
12	chr6:25313600-25320200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:25313800-25315800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:25313800-25316000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:25313800-25318400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:25313800-25318400	Weak transcription	Lung	lung
17	chr6:25313800-25322800	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:25313800-25325800	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr6:25313800-25326800	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:25313800-25331400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr6:25314000-25318800	Weak transcription	Small Intestine	intestine
22	chr6:25314000-25325000	Weak transcription	Placenta	Placenta
23	chr6:25314200-25316000	Weak transcription	Ovary	ovary
24	chr6:25314200-25318400	Weak transcription	NHDF-Ad	bronchial
25	chr6:25314200-25319200	Weak transcription	Thymus	Thymus
26	chr6:25314600-25316800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:25314600-25317400	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr6:25314600-25317400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:25314800-25316400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:25314800-25317400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr6:25314800-25317600	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr6:25314800-25319000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr6:25315000-25316400	Enhancers	iPS-18 Cell Line	embryonic stem cell
34	chr6:25315000-25316600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr6:25315000-25316600	Enhancers	Brain Anterior Caudate	brain
36	chr6:25315000-25316600	Enhancers	Stomach Mucosa	stomach
37	chr6:25315000-25316800	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr6:25315200-25316000	Enhancers	ES-I3 Cell Line	embryonic stem cell
39	chr6:25315200-25316000	Weak transcription	Brain Cingulate Gyrus	brain
40	chr6:25315200-25316200	Enhancers	Fetal Brain Female	brain
41	chr6:25315400-25316000	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr6:25315400-25316200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr6:25315400-25316200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
44	chr6:25315400-25316200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:25315400-25316200	Enhancers	Brain Germinal Matrix	brain
46	chr6:25315400-25316200	Enhancers	Fetal Intestine Small	intestine
47	chr6:25315400-25316400	Enhancers	H1 Cell Line	embryonic stem cell
48	chr6:25315400-25316400	Enhancers	Fetal Heart	heart
49	chr6:25315400-25316400	Enhancers	Fetal Kidney	kidney
50	chr6:25315400-25316400	Enhancers	HSMMtube	muscle

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