Variant report

Variant	rs7552701
Chromosome Location	chr1:180454748-180454749
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	chr1:179850633..179853167-chr1:180451916..180454813,2	MCF-7	breast:
2	chr1:180452066..180455283-chr1:180469732..180473290,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135847	Chromatin interaction
ENSG00000143337	Chromatin interaction
ENSG00000272906	Chromatin interaction

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10494528	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10494529	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1069436	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10913988	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10913990	0.84[EUR][1000 genomes]
rs10913991	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10913992	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10913995	0.86[EUR][1000 genomes]
rs10913996	0.88[EUR][1000 genomes]
rs10914004	0.88[EUR][1000 genomes]
rs10914012	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs11487431	0.88[EUR][1000 genomes]
rs12058221	0.88[EUR][1000 genomes]
rs12062561	0.88[EUR][1000 genomes]
rs12065388	0.93[EUR][1000 genomes]
rs12069389	0.88[EUR][1000 genomes]
rs12070624	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12071353	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12076995	0.88[EUR][1000 genomes]
rs12077656	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12077791	0.88[EUR][1000 genomes]
rs12077839	0.88[EUR][1000 genomes]
rs12081494	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12081607	1.00[YRI][hapmap]
rs12083900	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12084039	0.88[EUR][1000 genomes]
rs12087060	0.93[EUR][1000 genomes]
rs12087325	0.88[EUR][1000 genomes]
rs12089373	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12093073	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1339721	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16856042	0.93[EUR][1000 genomes]
rs2254465	1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2764433	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4403592	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs55660948	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55962675	0.88[EUR][1000 genomes]
rs56079047	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56303477	0.84[EUR][1000 genomes]
rs56333717	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56747078	0.93[EUR][1000 genomes]
rs57070632	0.93[EUR][1000 genomes]
rs57424497	0.88[EUR][1000 genomes]
rs57493263	0.88[EUR][1000 genomes]
rs58145394	0.85[EUR][1000 genomes]
rs58369506	0.88[EUR][1000 genomes]
rs59357483	0.88[EUR][1000 genomes]
rs59371134	0.93[EUR][1000 genomes]
rs60528279	0.83[EUR][1000 genomes]
rs61024380	0.88[EUR][1000 genomes]
rs6425635	0.88[EUR][1000 genomes]
rs6659477	0.84[EUR][1000 genomes]
rs66619942	0.88[EUR][1000 genomes]
rs6663823	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs6667388	0.88[EUR][1000 genomes]
rs6670242	0.88[EUR][1000 genomes]
rs6670868	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6670950	1.00[CEU][hapmap]
rs6673113	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs6676778	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs66913400	0.88[EUR][1000 genomes]
rs6696075	0.88[EUR][1000 genomes]
rs67071426	0.88[EUR][1000 genomes]
rs67343454	0.93[EUR][1000 genomes]
rs67517246	0.93[EUR][1000 genomes]
rs67621570	0.88[EUR][1000 genomes]
rs67623108	0.93[EUR][1000 genomes]
rs67716213	0.88[EUR][1000 genomes]
rs67830766	0.88[EUR][1000 genomes]
rs68010689	0.93[EUR][1000 genomes]
rs68046305	0.91[EUR][1000 genomes]
rs72714809	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714814	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714815	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714816	0.90[EUR][1000 genomes]
rs72714819	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714820	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714824	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714859	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714872	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714883	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714890	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714891	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714892	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714894	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72714896	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72716605	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72716619	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72716624	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72716634	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72716637	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72720921	0.85[EUR][1000 genomes]
rs73037411	0.88[EUR][1000 genomes]
rs73048237	0.88[EUR][1000 genomes]
rs7533389	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7542223	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9662762	0.86[EUR][1000 genomes]

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	nsv1003739	chr1:180027760-180483292	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv535217	chr1:180027760-180483292	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv1013716	chr1:180287338-180477072	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
4	nsv535221	chr1:180287338-180477072	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers 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	39 gene(s)	inside rSNPs	diseases
5	esv2762200	chr1:180300936-180493841	ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
6	nsv1003359	chr1:180300936-180727561	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
7	nsv949311	chr1:180438895-180692815	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180404400-180469000	Weak transcription	Pancreas	Pancrea
2	chr1:180425800-180457600	Weak transcription	Aorta	Aorta
3	chr1:180428000-180470000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr1:180429600-180455000	Weak transcription	Left Ventricle	heart
5	chr1:180431200-180470200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr1:180432000-180470600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr1:180433800-180455000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr1:180434000-180465600	Weak transcription	Fetal Brain Male	brain
9	chr1:180434200-180470200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr1:180434800-180458800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr1:180435000-180456400	Weak transcription	Fetal Kidney	kidney
12	chr1:180435200-180469000	Weak transcription	Brain Angular Gyrus	brain
13	chr1:180437600-180455200	Weak transcription	Ovary	ovary
14	chr1:180437600-180470400	Weak transcription	Right Ventricle	heart
15	chr1:180437600-180470600	Weak transcription	Spleen	Spleen
16	chr1:180437600-180471000	Weak transcription	Lung	lung
17	chr1:180440000-180455200	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr1:180440000-180469000	Weak transcription	HSMMtube	muscle
19	chr1:180440200-180468400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr1:180440200-180469000	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr1:180441400-180455200	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr1:180441800-180462800	Weak transcription	NHLF	lung
23	chr1:180442200-180454800	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr1:180442200-180454800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr1:180443400-180468200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr1:180444800-180454800	Weak transcription	Psoas Muscle	Psoas
27	chr1:180444800-180470600	Weak transcription	Esophagus	oesophagus
28	chr1:180446400-180455200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr1:180446400-180455400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr1:180447000-180470400	Weak transcription	Colonic Mucosa	Colon
31	chr1:180447400-180457000	Weak transcription	NH-A	brain
32	chr1:180447800-180469000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr1:180448400-180470200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr1:180448600-180455200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:180448800-180460800	Weak transcription	Brain Germinal Matrix	brain
36	chr1:180449000-180455200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr1:180449200-180457800	Weak transcription	Fetal Intestine Small	intestine
38	chr1:180449200-180469000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr1:180449400-180466800	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr1:180449600-180455400	Weak transcription	Primary hematopoietic stem cells	blood
41	chr1:180449800-180465600	Weak transcription	Fetal Brain Female	brain
42	chr1:180452000-180454800	Weak transcription	Brain Anterior Caudate	brain
43	chr1:180452000-180455000	Weak transcription	NHEK	skin
44	chr1:180452000-180461400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr1:180452000-180465200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr1:180452000-180469000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr1:180452000-180470000	Weak transcription	Fetal Heart	heart
48	chr1:180452200-180458400	Weak transcription	Stomach Mucosa	stomach
49	chr1:180452200-180459000	Weak transcription	Osteobl	bone
50	chr1:180452200-180463400	Weak transcription	Brain Hippocampus Middle	brain

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