Variant report

Variant	rs4895789
Chromosome Location	chr6:149764654-149764655
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149763319..149765484-chr6:149839894..149842239,2	MCF-7	breast:
2	chr6:149763379..149766103-chr6:149776553..149779366,2	MCF-7	breast:
3	chr6:149763441..149766003-chr6:149768583..149771236,2	K562	blood:

Variant related genes	Relation type
ENSG00000178199	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1074495	0.89[ASN][1000 genomes]
rs1934117	0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs2007062	0.80[ASN][1000 genomes]
rs2143076	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs2153219	0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs2179367	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2262617	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2744430	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2789488	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs2789492	0.88[EUR][1000 genomes]
rs2789493	0.89[ASN][1000 genomes]
rs2789495	0.91[ASN][1000 genomes]
rs2789496	0.81[ASN][1000 genomes]
rs2789501	0.83[JPT][hapmap]
rs4895788	0.97[EUR][1000 genomes]
rs4897124	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897125	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs504985	0.95[CEU][hapmap]
rs506268	0.90[CEU][hapmap]
rs514839	0.95[CEU][hapmap]
rs521845	0.95[CEU][hapmap]
rs536203	0.95[CEU][hapmap]
rs537354	0.95[CEU][hapmap]
rs540538	0.95[CEU][hapmap]
rs560051	0.95[CEU][hapmap]
rs562428	0.95[CEU][hapmap]
rs577001	0.95[CEU][hapmap]
rs585022	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs626755	0.94[JPT][hapmap]
rs632360	0.88[ASN][1000 genomes]
rs634440	0.91[ASN][1000 genomes]
rs638407	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs652807	0.95[CEU][hapmap];0.95[EUR][1000 genomes]
rs656461	0.83[JPT][hapmap]
rs6570965	0.90[CEU][hapmap]
rs664951	0.82[ASN][1000 genomes]
rs760897	0.88[ASN][1000 genomes]
rs9285519	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs9322178	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs9373589	0.95[CEU][hapmap]
rs9373592	0.92[EUR][1000 genomes]
rs9390677	0.95[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv5533	chr6:149748047-149793072	Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv464076	chr6:149755695-149798835	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv604846	chr6:149755695-149798835	ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv3406755	chr6:149763459-149768057	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3368142	chr6:149764359-149767257	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149753400-149770000	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr6:149753600-149768400	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr6:149753600-149769600	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:149760600-149766600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr6:149760800-149765800	Weak transcription	GM12878-XiMat	blood
6	chr6:149761600-149769600	Weak transcription	Primary B cells from cord blood	blood
7	chr6:149762600-149770800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:149762800-149771000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:149763000-149764800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:149763200-149765800	Weak transcription	Right Ventricle	heart
11	chr6:149763200-149770000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:149763200-149771000	Weak transcription	Fetal Intestine Small	intestine
13	chr6:149763200-149771400	Weak transcription	Pancreas	Pancrea
14	chr6:149763400-149766000	Enhancers	HepG2	liver
15	chr6:149764000-149765200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr6:149764200-149765200	Bivalent Enhancer	Adipose Nuclei	Adipose
17	chr6:149764200-149765200	Enhancers	Brain Hippocampus Middle	brain
18	chr6:149764200-149765200	Enhancers	Fetal Lung	lung
19	chr6:149764200-149765200	Enhancers	Ovary	ovary
20	chr6:149764400-149764800	Enhancers	Right Atrium	heart
21	chr6:149764400-149764800	Enhancers	Spleen	Spleen
22	chr6:149764400-149765000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:149764400-149765000	Enhancers	Left Ventricle	heart
24	chr6:149764400-149765200	Enhancers	Brain Anterior Caudate	brain
25	chr6:149764400-149765200	Enhancers	Brain Cingulate Gyrus	brain
26	chr6:149764400-149765200	Enhancers	Brain Substantia Nigra	brain
27	chr6:149764400-149765200	Enhancers	Fetal Stomach	stomach
28	chr6:149764400-149765400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr6:149764400-149765400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:149764600-149764800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:149764600-149764800	Enhancers	Placenta	Placenta
32	chr6:149764600-149764800	Enhancers	Lung	lung
33	chr6:149764600-149765000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:149764600-149765200	Bivalent Enhancer	Fetal Muscle Leg	muscle
35	chr6:149764600-149768600	Bivalent Enhancer	Fetal Muscle Trunk	muscle

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