Variant report

Variant	rs13204556
Chromosome Location	chr6:56344103-56344104
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:56343995..56346780-chr6:56355788..56358023,2	K562	blood:
2	chr6:56343233..56345415-chr6:56361425..56363367,2	MCF-7	breast:
3	chr6:56330424..56332001-chr6:56343784..56346059,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151914	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs11753813	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11758339	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11759493	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961668	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12174955	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12527139	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1359068	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1359070	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1535610	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1535612	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570492	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2273972	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2273973	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2273974	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2397226	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34954984	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35671304	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35926142	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3927453	0.89[ASN][1000 genomes]
rs4130060	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4143828	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4236140	0.89[EUR][1000 genomes]
rs4236141	0.84[ASN][1000 genomes]
rs4236142	0.82[ASN][1000 genomes]
rs4236143	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4236144	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4236145	0.82[EUR][1000 genomes]
rs4283892	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4331988	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4466244	0.82[ASN][1000 genomes]
rs4499917	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4544910	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs45486696	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4712132	0.82[EUR][1000 genomes]
rs4715625	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715630	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59101638	0.88[ASN][1000 genomes]
rs6459161	0.87[ASN][1000 genomes]
rs6459163	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs656550	0.84[AMR][1000 genomes]
rs656988	0.84[AMR][1000 genomes]
rs6904202	0.89[EUR][1000 genomes]
rs6907917	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6911502	0.87[AMR][1000 genomes]
rs6913572	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6914325	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6927258	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6928601	0.89[ASN][1000 genomes]
rs6939305	0.84[EUR][1000 genomes]
rs721475	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72877350	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7741295	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7746753	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7755220	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7755573	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7758054	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7760695	0.82[EUR][1000 genomes]
rs7762629	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9296848	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296850	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9349822	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9349823	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9349824	0.89[ASN][1000 genomes]
rs9349825	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9357921	0.86[ASN][1000 genomes]
rs9357922	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9370531	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9370534	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9370535	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382631	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9382635	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9396211	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9396213	0.89[ASN][1000 genomes]
rs9396214	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9396215	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9396218	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9464389	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9475709	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475716	0.82[EUR][1000 genomes];0.81[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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv885912	chr6:56327849-56458836	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56308800-56373800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:56315000-56347200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:56315000-56349800	Strong transcription	HSMM	muscle
4	chr6:56315600-56371000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:56319000-56348200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:56319200-56348400	Strong transcription	NHDF-Ad	bronchial
7	chr6:56319400-56344200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:56322200-56349200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:56322400-56344200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr6:56322600-56348200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:56325000-56346600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr6:56327200-56351400	Weak transcription	Fetal Thymus	thymus
13	chr6:56328600-56362000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:56329200-56373800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:56330000-56351400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr6:56330000-56372400	Weak transcription	Lung	lung
17	chr6:56330200-56347200	Weak transcription	Small Intestine	intestine
18	chr6:56330200-56357400	Weak transcription	Esophagus	oesophagus
19	chr6:56332800-56346000	Strong transcription	Adipose Nuclei	Adipose
20	chr6:56332800-56349200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:56333000-56344400	Strong transcription	GM12878-XiMat	blood
22	chr6:56333000-56350000	Strong transcription	HMEC	breast
23	chr6:56334400-56348200	Strong transcription	Fetal Muscle Trunk	muscle
24	chr6:56334400-56359400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr6:56336600-56347400	Weak transcription	K562	blood
26	chr6:56337600-56348000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:56337600-56350800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr6:56337600-56351400	Weak transcription	Aorta	Aorta
29	chr6:56337600-56351400	Weak transcription	Pancreas	Pancrea
30	chr6:56337600-56364600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr6:56337600-56376000	Weak transcription	Gastric	stomach
32	chr6:56339600-56345600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr6:56339800-56354400	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr6:56339800-56355800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:56340000-56344400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr6:56340200-56344400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:56340200-56347800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:56340800-56346800	Weak transcription	Right Ventricle	heart
39	chr6:56341000-56344200	Genic enhancers	Liver	Liver
40	chr6:56341000-56344200	Weak transcription	Fetal Kidney	kidney
41	chr6:56341000-56346000	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr6:56341000-56347000	Weak transcription	Stomach Mucosa	stomach
43	chr6:56341200-56346200	Strong transcription	Ovary	ovary
44	chr6:56341200-56348200	Strong transcription	NH-A	brain
45	chr6:56341400-56346800	Strong transcription	Fetal Intestine Large	intestine
46	chr6:56341400-56348200	Strong transcription	Osteobl	bone
47	chr6:56341400-56348600	Weak transcription	Hela-S3	cervix
48	chr6:56341600-56344400	Weak transcription	HepG2	liver
49	chr6:56341600-56345200	Weak transcription	Placenta	Placenta
50	chr6:56341600-56346600	Weak transcription	H9 Cell Line	embryonic stem cell

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