Variant report

Variant	rs55778105
Chromosome Location	chr6:119582305-119582306
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:119254834..119257294-chr6:119580587..119583568,2	K562	blood:
2	chr6:119579699..119582864-chr6:119585578..119588407,3	K562	blood:
3	chr6:119450994..119451740-chr6:119582104..119582735,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111877	Chromatin interaction
ENSG00000253194	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1022869	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1022870	0.85[ASN][1000 genomes]
rs10456921	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10457352	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10457353	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10485001	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10872177	0.85[EUR][1000 genomes]
rs11153796	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153797	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153800	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153803	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153805	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153808	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153810	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153811	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153812	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11751945	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11755967	0.84[EUR][1000 genomes]
rs11759899	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11961647	0.85[ASN][1000 genomes]
rs11962938	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12192420	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12198423	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12198667	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12200554	0.81[AMR][1000 genomes]
rs12205260	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12205826	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12207595	0.86[EUR][1000 genomes]
rs12210002	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17514051	0.84[EUR][1000 genomes]
rs6569057	0.81[AMR][1000 genomes]
rs6569065	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6569066	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6569073	0.85[ASN][1000 genomes]
rs6903249	0.85[ASN][1000 genomes]
rs6909928	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6913626	0.85[ASN][1000 genomes]
rs6913654	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6915957	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6918913	0.85[ASN][1000 genomes]
rs72960631	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72966433	0.92[ASN][1000 genomes]
rs7740993	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7743299	0.85[EUR][1000 genomes]
rs7743824	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7750041	0.85[ASN][1000 genomes]
rs7753492	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7760582	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7767198	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7770777	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs926859	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025995	chr6:119407742-119709548	Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv886570	chr6:119450888-119600556	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1017507	chr6:119465981-119664949	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119547400-119583000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:119558800-119589800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:119558800-119590200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:119558800-119590400	Weak transcription	GM12878-XiMat	blood
5	chr6:119558800-119602000	Weak transcription	Gastric	stomach
6	chr6:119562800-119583000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:119562800-119590200	Weak transcription	Fetal Stomach	stomach
8	chr6:119562800-119590800	Weak transcription	Fetal Muscle Leg	muscle
9	chr6:119563400-119588000	Weak transcription	Fetal Kidney	kidney
10	chr6:119563400-119590200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:119566800-119582600	Weak transcription	Fetal Lung	lung
12	chr6:119568600-119592600	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr6:119569000-119583000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:119569200-119589800	Weak transcription	Fetal Intestine Large	intestine
15	chr6:119569200-119590000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr6:119569200-119590400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:119569200-119591600	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:119569200-119591600	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr6:119569400-119590000	Weak transcription	Placenta	Placenta
20	chr6:119569400-119590200	Weak transcription	Left Ventricle	heart
21	chr6:119569400-119591600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr6:119569800-119582600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:119571600-119583800	Weak transcription	Primary B cells from cord blood	blood
24	chr6:119574200-119583800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:119574200-119589800	Weak transcription	Fetal Intestine Small	intestine
26	chr6:119577000-119583800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr6:119577000-119583800	Weak transcription	Primary hematopoietic stem cells	blood
28	chr6:119577000-119588800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr6:119578600-119588800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr6:119578800-119583200	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr6:119579000-119583800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:119579000-119584000	Enhancers	HepG2	liver
33	chr6:119579600-119588200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr6:119580000-119583400	Enhancers	Hela-S3	cervix
35	chr6:119580200-119582600	Weak transcription	NHEK	skin
36	chr6:119580200-119584000	Enhancers	Liver	Liver
37	chr6:119580400-119582600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:119580400-119588800	Weak transcription	Small Intestine	intestine
39	chr6:119580600-119583400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr6:119580600-119583800	Weak transcription	Stomach Mucosa	stomach
41	chr6:119580800-119582400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr6:119581000-119583200	Weak transcription	Lung	lung
43	chr6:119581400-119582800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:119581600-119582600	Weak transcription	K562	blood
45	chr6:119581600-119583400	Enhancers	NHDF-Ad	bronchial
46	chr6:119581800-119582800	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr6:119581800-119590000	Weak transcription	Adipose Nuclei	Adipose
48	chr6:119582000-119587800	Weak transcription	Colon Smooth Muscle	Colon
49	chr6:119582200-119582400	Enhancers	Pancreas	Pancrea

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