Variant report

Variant	rs12201496
Chromosome Location	chr6:144024834-144024835
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	chr14:67903168..67904681-chr6:144023662..144026476,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs1108314	0.80[EUR][1000 genomes]
rs12195195	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55659702	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs6913134	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7740709	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7766510	0.86[ASN][1000 genomes]
rs7776119	0.85[ASN][1000 genomes]
rs8180640	0.80[EUR][1000 genomes]
rs9373397	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376779	0.86[ASN][1000 genomes]
rs9386043	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403523	0.84[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	esv2758084	chr6:143916621-144079976	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759476	chr6:143916621-144079976	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv886737	chr6:144010570-144033992	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144011600-144053200	Weak transcription	Hela-S3	cervix
2	chr6:144012200-144026800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:144014200-144027800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:144014200-144039800	Weak transcription	Pancreas	Pancrea
5	chr6:144015400-144034600	Weak transcription	Esophagus	oesophagus
6	chr6:144016200-144037200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:144016200-144038000	Weak transcription	NHEK	skin
8	chr6:144016600-144034000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:144016600-144034000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:144017000-144026800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr6:144017000-144038200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:144017200-144044200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:144017400-144034400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:144017600-144026800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:144017800-144047200	Weak transcription	K562	blood
16	chr6:144018000-144030800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr6:144018200-144026800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:144018200-144044400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr6:144018600-144030600	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr6:144019000-144028800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr6:144020200-144026800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr6:144020200-144034600	Weak transcription	Spleen	Spleen
23	chr6:144020400-144030800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:144020800-144026600	Weak transcription	HepG2	liver
25	chr6:144021000-144026800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr6:144021200-144027200	Weak transcription	Gastric	stomach
27	chr6:144021600-144030800	Weak transcription	Right Ventricle	heart
28	chr6:144021800-144026800	Weak transcription	Placenta	Placenta
29	chr6:144021800-144026800	Weak transcription	Lung	lung
30	chr6:144021800-144030800	Weak transcription	Left Ventricle	heart
31	chr6:144021800-144034000	Weak transcription	Fetal Muscle Trunk	muscle
32	chr6:144021800-144037800	Weak transcription	Right Atrium	heart
33	chr6:144022200-144027200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr6:144022200-144027800	Weak transcription	Fetal Brain Male	brain
35	chr6:144022200-144034000	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr6:144022200-144034000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr6:144022200-144034600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr6:144022200-144034800	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr6:144022200-144052600	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr6:144022200-144063200	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr6:144022400-144034000	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr6:144022800-144052800	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr6:144022800-144057200	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr6:144022800-144064200	Weak transcription	NH-A	brain
45	chr6:144023000-144026800	Weak transcription	Fetal Lung	lung
46	chr6:144023000-144030400	Weak transcription	Fetal Heart	heart
47	chr6:144023000-144034000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr6:144023000-144034000	Weak transcription	HSMMtube	muscle
49	chr6:144023000-144046200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr6:144023200-144025600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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