Variant report

Variant	rs55700986
Chromosome Location	chr6:128604430-128604431
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	chr6:128581287..128583776-chr6:128604399..128606383,2	MCF-7	breast:

Extended variants
information (count: 114 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs11753971	1.00[ASN][1000 genomes]
rs11964875	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11965122	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11965141	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966128	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339196	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538498	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1612415	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055287	1.00[ASN][1000 genomes]
rs17055307	1.00[ASN][1000 genomes]
rs17055313	1.00[ASN][1000 genomes]
rs17055324	1.00[ASN][1000 genomes]
rs17055328	1.00[ASN][1000 genomes]
rs17055339	1.00[ASN][1000 genomes]
rs17055340	1.00[ASN][1000 genomes]
rs17055343	1.00[ASN][1000 genomes]
rs17055348	1.00[ASN][1000 genomes]
rs17055350	1.00[ASN][1000 genomes]
rs17055352	1.00[ASN][1000 genomes]
rs17055362	1.00[ASN][1000 genomes]
rs17055368	1.00[ASN][1000 genomes]
rs17055373	1.00[ASN][1000 genomes]
rs17055386	1.00[ASN][1000 genomes]
rs17055450	1.00[ASN][1000 genomes]
rs17055452	1.00[ASN][1000 genomes]
rs17055554	1.00[ASN][1000 genomes]
rs17055564	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055574	0.85[EUR][1000 genomes]
rs17055596	0.85[EUR][1000 genomes]
rs17055597	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055601	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055604	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055608	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055611	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055612	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055616	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055617	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055618	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055619	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055628	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055630	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055679	0.85[EUR][1000 genomes]
rs17055719	0.85[EUR][1000 genomes]
rs17343887	0.85[EUR][1000 genomes]
rs17350133	1.00[ASN][1000 genomes]
rs17350286	1.00[ASN][1000 genomes]
rs17430131	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17430452	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17456343	0.85[EUR][1000 genomes]
rs17456385	0.85[EUR][1000 genomes]
rs17456601	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1768347	1.00[ASN][1000 genomes]
rs1768353	1.00[ASN][1000 genomes]
rs1768357	1.00[ASN][1000 genomes]
rs1768360	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2027311	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4267969	0.85[EUR][1000 genomes]
rs4466261	0.83[EUR][1000 genomes]
rs55969073	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56241890	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57318936	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59132771	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60915390	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6420738	1.00[ASN][1000 genomes]
rs6913718	0.83[EUR][1000 genomes]
rs6931769	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6933821	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967021	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967026	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967039	0.85[EUR][1000 genomes]
rs72967046	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967053	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967056	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967058	0.85[EUR][1000 genomes]
rs72967074	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967078	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967081	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967087	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967090	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969051	1.00[ASN][1000 genomes]
rs72969054	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969059	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969061	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969063	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969067	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969070	0.85[EUR][1000 genomes]
rs72969074	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969075	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969078	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969081	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969088	1.00[ASN][1000 genomes]
rs72969090	1.00[ASN][1000 genomes]
rs72969093	1.00[ASN][1000 genomes]
rs72969097	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72969098	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72971103	0.85[EUR][1000 genomes]
rs72972082	0.85[EUR][1000 genomes]
rs72972084	0.85[EUR][1000 genomes]
rs72972086	0.85[EUR][1000 genomes]
rs73588649	1.00[ASN][1000 genomes]
rs73588653	1.00[ASN][1000 genomes]
rs73588664	1.00[ASN][1000 genomes]
rs73588693	1.00[ASN][1000 genomes]
rs73592692	1.00[ASN][1000 genomes]
rs7759340	1.00[ASN][1000 genomes]
rs7771630	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773248	1.00[ASN][1000 genomes]
rs7776405	0.85[EUR][1000 genomes]
rs9321114	0.83[EUR][1000 genomes];1.00[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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128585200-128617600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:128588000-128608200	Weak transcription	Aorta	Aorta
3	chr6:128592800-128605200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:128593000-128609000	Weak transcription	Fetal Lung	lung
5	chr6:128593000-128631600	Weak transcription	Left Ventricle	heart
6	chr6:128595800-128608800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:128596600-128608800	Weak transcription	NH-A	brain
8	chr6:128596800-128607400	Weak transcription	HSMMtube	muscle
9	chr6:128596800-128623600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:128597800-128625000	Weak transcription	HSMM	muscle
11	chr6:128598200-128613800	Weak transcription	HUVEC	blood vessel
12	chr6:128598600-128621200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:128598800-128605200	Weak transcription	Brain Substantia Nigra	brain
14	chr6:128598800-128612400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:128600200-128605000	Weak transcription	Ovary	ovary
16	chr6:128600200-128606800	Weak transcription	Right Atrium	heart
17	chr6:128601200-128606000	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr6:128601200-128606400	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr6:128601200-128607200	Weak transcription	Stomach Smooth Muscle	stomach
20	chr6:128601400-128604600	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr6:128601400-128605200	Weak transcription	Small Intestine	intestine
22	chr6:128601400-128605800	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr6:128602000-128606200	Enhancers	Fetal Heart	heart
24	chr6:128602400-128605400	Weak transcription	Gastric	stomach
25	chr6:128602400-128605800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr6:128602400-128632400	Weak transcription	Pancreas	Pancrea
27	chr6:128602600-128605800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr6:128602800-128605800	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr6:128602800-128605800	Enhancers	Brain Hippocampus Middle	brain
30	chr6:128603000-128605200	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr6:128603000-128605200	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr6:128603000-128605400	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr6:128603000-128617200	Weak transcription	Fetal Intestine Small	intestine
34	chr6:128603000-128642800	Weak transcription	Fetal Intestine Large	intestine
35	chr6:128603200-128605400	Enhancers	Primary hematopoietic stem cells short term culture	blood
36	chr6:128603400-128605200	Weak transcription	Psoas Muscle	Psoas
37	chr6:128604000-128605800	Enhancers	iPS-18 Cell Line	embryonic stem cell
38	chr6:128604200-128604600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr6:128604200-128605600	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:128604200-128605800	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr6:128604200-128606000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr6:128604400-128604800	Weak transcription	Brain Cingulate Gyrus	brain
43	chr6:128604400-128605200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr6:128604400-128605200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr6:128604400-128605200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr6:128604400-128630600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr6:128604400-128633200	Weak transcription	Fetal Thymus	thymus

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