Variant report

Variant	rs55880824
Chromosome Location	chr7:69123160-69123161
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	chr7:69120658..69123423-chr7:69130852..69132884,2	MCF-7	breast:

Extended variants
information (count: 151 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:146)

rs_ID	r²[population]
rs1000874	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10085600	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10216097	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10229336	0.85[EUR][1000 genomes]
rs10229578	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10229588	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10230356	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10230750	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10233869	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10234831	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10236103	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10238307	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10239569	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10240462	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10242206	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10243408	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10244001	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10244128	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10244247	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10244885	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10245493	0.92[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10245690	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10247386	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10248237	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10254086	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10255563	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10255613	0.92[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10256311	0.81[ASN][1000 genomes]
rs10256512	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10256943	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10257587	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10261380	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10263467	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10268221	0.92[AMR][1000 genomes]
rs10268457	0.92[AMR][1000 genomes]
rs10268729	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10269267	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10272781	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10274099	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10274419	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10275112	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10275721	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10276664	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10278978	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10279669	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10279708	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10280018	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10281575	0.92[AMR][1000 genomes]
rs10281579	0.92[AMR][1000 genomes]
rs10452705	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10487943	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10950193	0.88[EUR][1000 genomes]
rs11762049	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11764277	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11764717	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11769033	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11769738	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11770241	0.88[EUR][1000 genomes]
rs11771751	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11771899	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11772602	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11773581	0.92[AMR][1000 genomes]
rs11975481	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11975506	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11979745	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17140693	0.92[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs17140755	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17140759	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17140783	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17140817	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17140884	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17140938	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17353920	0.84[EUR][1000 genomes]
rs17457910	0.84[EUR][1000 genomes]
rs17458713	0.84[EUR][1000 genomes]
rs2052124	0.84[EUR][1000 genomes]
rs2068718	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28393394	0.85[EUR][1000 genomes]
rs28493290	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28524600	0.81[ASN][1000 genomes]
rs28577243	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2865804	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28812289	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34080361	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3735260	0.85[ASN][1000 genomes]
rs3800979	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs41379648	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4305786	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55654955	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55693719	0.81[ASN][1000 genomes]
rs55756263	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55847506	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs56800568	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57493471	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58626042	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58666988	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58863846	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61370051	0.82[EUR][1000 genomes]
rs61424317	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61692535	0.92[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs61744589	0.83[ASN][1000 genomes]
rs62454937	0.81[ASN][1000 genomes]
rs62454938	0.81[ASN][1000 genomes]
rs6460525	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6945524	0.84[EUR][1000 genomes]
rs6947326	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6950638	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6951770	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6958450	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6962237	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6962338	0.84[EUR][1000 genomes]
rs6967788	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6968426	0.85[EUR][1000 genomes]
rs6975211	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6977472	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6980305	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs717266	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs719294	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73154605	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73155227	0.81[ASN][1000 genomes]
rs73164795	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73166559	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73167506	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73168739	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73168740	0.93[EUR][1000 genomes]
rs73168747	0.85[EUR][1000 genomes]
rs73168758	0.85[EUR][1000 genomes]
rs73170834	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73170852	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73170857	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73170864	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73172903	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7357113	0.81[ASN][1000 genomes]
rs740946	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7777243	0.81[EUR][1000 genomes]
rs7777269	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7777621	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7780835	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7781664	0.85[EUR][1000 genomes]
rs7784950	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7787342	0.81[ASN][1000 genomes]
rs7801209	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7810982	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs917718	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs917725	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9690769	0.85[EUR][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	nsv1023885	chr7:68894896-69158290	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv538915	chr7:68894896-69158290	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv916011	chr7:68942155-69330800	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv428169	chr7:69021482-69196743	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv831021	chr7:69122169-69364491	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:69118000-69125200	Enhancers	Fetal Lung	lung
2	chr7:69119200-69123200	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr7:69119200-69123200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr7:69119200-69123200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr7:69119200-69123400	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr7:69119600-69124800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr7:69120000-69124600	Weak transcription	GM12878-XiMat	blood
8	chr7:69120200-69124600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr7:69120400-69125000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr7:69120600-69127400	Weak transcription	Aorta	Aorta
11	chr7:69120800-69125200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr7:69120800-69128400	Weak transcription	Primary B cells from peripheral blood	blood
13	chr7:69121000-69128400	Weak transcription	Primary B cells from cord blood	blood
14	chr7:69121200-69125000	Weak transcription	Brain Anterior Caudate	brain
15	chr7:69121400-69129400	Weak transcription	Psoas Muscle	Psoas
16	chr7:69121800-69125200	Enhancers	Fetal Brain Female	brain
17	chr7:69122000-69123400	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr7:69122200-69123200	Enhancers	Fetal Brain Male	brain
19	chr7:69122200-69124000	Weak transcription	Ovary	ovary
20	chr7:69122200-69124800	Weak transcription	HSMMtube	muscle
21	chr7:69122200-69124800	Weak transcription	Osteobl	bone
22	chr7:69122400-69124600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr7:69122400-69124800	Weak transcription	Colon Smooth Muscle	Colon
24	chr7:69122400-69125200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr7:69122400-69128600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr7:69122600-69123600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr7:69122600-69123600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr7:69122600-69123600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr7:69122600-69124000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr7:69122600-69124000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr7:69122600-69124000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr7:69122600-69124200	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr7:69122600-69124600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr7:69122600-69124600	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr7:69122600-69124600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr7:69122600-69124600	Weak transcription	Fetal Stomach	stomach
37	chr7:69122600-69124800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr7:69122600-69124800	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr7:69122600-69124800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr7:69122600-69124800	Weak transcription	Fetal Heart	heart
41	chr7:69122600-69126600	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr7:69122600-69127200	Weak transcription	Right Atrium	heart
43	chr7:69122600-69127400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr7:69122600-69128800	Weak transcription	Brain Hippocampus Middle	brain
45	chr7:69122600-69128800	Weak transcription	Fetal Kidney	kidney
46	chr7:69122600-69135000	Weak transcription	Stomach Smooth Muscle	stomach
47	chr7:69122800-69123400	Weak transcription	Brain Substantia Nigra	brain
48	chr7:69122800-69127000	Weak transcription	Brain Germinal Matrix	brain
49	chr7:69123000-69124000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr7:69123000-69124400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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