Variant report

Variant	rs56093109
Chromosome Location	chr6:35491020-35491021
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35490393..35491197-chr6:35551212..35551959,2	MCF-7	breast:
2	chr6:35478821..35481224-chr6:35489312..35491661,2	K562	blood:
3	chr6:35489138..35492526-chr6:35702598..35706407,3	K562	blood:
4	chr6:35490197..35491331-chr6:35703653..35706040,22	K562	blood:
5	chr6:35490258..35491216-chr6:35704176..35705791,7	MCF-7	breast:
6	chr6:35463713..35467638-chr6:35488845..35491546,5	K562	blood:
7	chr6:35490356..35491291-chr6:35519797..35520709,4	MCF-7	breast:
8	chr6:35490540..35491130-chr6:35705031..35706454,3	MCF-7	breast:
9	chr6:35464491..35467638-chr6:35489689..35492703,3	K562	blood:
10	chr6:35490017..35491636-chr6:35703434..35704990,2	MCF-7	breast:
11	chr6:35489591..35492334-chr6:35495143..35497651,2	MCF-7	breast:
12	chr6:35490242..35491081-chr6:35725037..35725942,4	K562	blood:
13	chr6:35490359..35491197-chr6:35519826..35520699,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000112041	Chromatin interaction
ENSG00000007866	Chromatin interaction
ENSG00000232909	Chromatin interaction
ENSG00000157343	Chromatin interaction

Extended variants
information (count: 109 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10947553	1.00[ASN][1000 genomes]
rs11962571	1.00[ASN][1000 genomes]
rs11963387	1.00[ASN][1000 genomes]
rs11963864	1.00[ASN][1000 genomes]
rs11965291	1.00[ASN][1000 genomes]
rs11966198	1.00[ASN][1000 genomes]
rs11966959	1.00[ASN][1000 genomes]
rs12110366	1.00[ASN][1000 genomes]
rs12110645	1.00[EUR][1000 genomes]
rs16878591	1.00[ASN][1000 genomes]
rs16878806	1.00[ASN][1000 genomes]
rs16879318	1.00[ASN][1000 genomes]
rs16879378	1.00[ASN][1000 genomes]
rs2395620	1.00[ASN][1000 genomes]
rs28675670	1.00[ASN][1000 genomes]
rs34866878	1.00[ASN][1000 genomes]
rs41270080	1.00[ASN][1000 genomes]
rs45484291	1.00[ASN][1000 genomes]
rs45492197	1.00[ASN][1000 genomes]
rs45532932	1.00[ASN][1000 genomes]
rs45586932	1.00[ASN][1000 genomes]
rs45614138	1.00[ASN][1000 genomes]
rs4711419	0.96[EUR][1000 genomes]
rs4713877	1.00[EUR][1000 genomes]
rs56002954	1.00[ASN][1000 genomes]
rs57012493	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57599664	1.00[ASN][1000 genomes]
rs57634040	1.00[ASN][1000 genomes]
rs58580399	1.00[ASN][1000 genomes]
rs58873316	1.00[ASN][1000 genomes]
rs58883868	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59000522	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59317948	0.86[AFR][1000 genomes]
rs59320339	1.00[ASN][1000 genomes]
rs59374947	0.82[AFR][1000 genomes]
rs59595954	1.00[ASN][1000 genomes]
rs60156710	1.00[ASN][1000 genomes]
rs61024208	1.00[ASN][1000 genomes]
rs61188051	1.00[ASN][1000 genomes]
rs61734569	1.00[ASN][1000 genomes]
rs6902870	1.00[ASN][1000 genomes]
rs6903096	1.00[ASN][1000 genomes]
rs6903200	1.00[EUR][1000 genomes]
rs6905853	0.82[AFR][1000 genomes]
rs6913026	1.00[ASN][1000 genomes]
rs6925456	1.00[ASN][1000 genomes]
rs6936165	1.00[ASN][1000 genomes]
rs6937483	1.00[ASN][1000 genomes]
rs6940708	1.00[ASN][1000 genomes]
rs6940722	1.00[ASN][1000 genomes]
rs6941244	1.00[ASN][1000 genomes]
rs73413737	1.00[ASN][1000 genomes]
rs73729766	1.00[ASN][1000 genomes]
rs73746446	1.00[EUR][1000 genomes]
rs73746465	1.00[ASN][1000 genomes]
rs73746467	1.00[ASN][1000 genomes]
rs73746471	1.00[ASN][1000 genomes]
rs73746473	1.00[ASN][1000 genomes]
rs73746478	1.00[ASN][1000 genomes]
rs73746481	1.00[ASN][1000 genomes]
rs73746488	1.00[ASN][1000 genomes]
rs73746490	1.00[ASN][1000 genomes]
rs73746491	1.00[ASN][1000 genomes]
rs73746493	1.00[ASN][1000 genomes]
rs73746494	1.00[ASN][1000 genomes]
rs73746495	1.00[ASN][1000 genomes]
rs73746498	1.00[ASN][1000 genomes]
rs73746499	1.00[ASN][1000 genomes]
rs73748203	1.00[ASN][1000 genomes]
rs73748204	1.00[ASN][1000 genomes]
rs73748205	1.00[ASN][1000 genomes]
rs73748206	1.00[ASN][1000 genomes]
rs73748209	1.00[ASN][1000 genomes]
rs73748211	1.00[ASN][1000 genomes]
rs7743425	1.00[ASN][1000 genomes]
rs7745039	1.00[ASN][1000 genomes]
rs7747121	1.00[ASN][1000 genomes]
rs7754530	1.00[ASN][1000 genomes]
rs7755021	1.00[ASN][1000 genomes]
rs7755718	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7757196	1.00[ASN][1000 genomes]
rs7758125	1.00[ASN][1000 genomes]
rs7766007	1.00[ASN][1000 genomes]
rs7768163	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7768741	1.00[ASN][1000 genomes]
rs7771222	1.00[ASN][1000 genomes]
rs7771722	1.00[ASN][1000 genomes]
rs9462080	1.00[ASN][1000 genomes]
rs9470018	1.00[ASN][1000 genomes]
rs9658060	1.00[ASN][1000 genomes]
rs9658118	1.00[ASN][1000 genomes]
rs9658126	1.00[ASN][1000 genomes]
rs9658136	1.00[ASN][1000 genomes]
rs9658141	1.00[ASN][1000 genomes]
rs9767565	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519370	chr6:35378778-35537406	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	72 gene(s)	inside rSNPs	diseases
2	nsv462909	chr6:35457396-35502202	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	24 gene(s)	inside rSNPs	diseases
3	nsv602912	chr6:35457396-35502202	Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	24 gene(s)	inside rSNPs	diseases
4	esv2758048	chr6:35463741-35806504	Genic enhancers Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
5	esv2759420	chr6:35463741-35806504	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
6	esv2761067	chr6:35471246-35573245	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv1022435	chr6:35476562-35556141	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1034786	chr6:35476562-35564799	Genic enhancers Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
9	nsv1031987	chr6:35476562-35579375	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv1028302	chr6:35480914-35542591	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
11	nsv538197	chr6:35480914-35542591	Weak transcription Bivalent Enhancer Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
12	nsv1024680	chr6:35480914-35555596	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv538198	chr6:35480914-35555596	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
14	nsv1032973	chr6:35481880-35564799	Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35490000-35491200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
2	chr6:35490000-35491800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr6:35490200-35491800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:35490200-35491800	Enhancers	Fetal Thymus	thymus
5	chr6:35490400-35491200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
6	chr6:35490400-35491200	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:35490400-35491200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
8	chr6:35490400-35491200	Enhancers	Liver	Liver
9	chr6:35490400-35491200	Enhancers	Fetal Stomach	stomach
10	chr6:35490400-35491200	Active TSS	Osteobl	bone
11	chr6:35490400-35491400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:35490400-35491800	Enhancers	Placenta	Placenta
13	chr6:35490600-35491200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:35490600-35491200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:35490600-35491200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
16	chr6:35490600-35491200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:35490600-35491200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:35490600-35491200	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
19	chr6:35490800-35491200	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:35490800-35491200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
21	chr6:35490800-35491200	Active TSS	Primary B cells from cord blood	blood
22	chr6:35490800-35491200	Flanking Active TSS	Primary B cells from peripheral blood	blood
23	chr6:35490800-35491200	Flanking Active TSS	Primary T cells from cord blood	blood
24	chr6:35490800-35491200	Enhancers	Primary hematopoietic stem cells	blood
25	chr6:35490800-35491200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
26	chr6:35490800-35491200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
27	chr6:35490800-35491200	Active TSS	Primary T killer memory cells from peripheral blood	blood
28	chr6:35490800-35491200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr6:35490800-35491200	Flanking Active TSS	Adipose Nuclei	Adipose
30	chr6:35490800-35491200	Active TSS	Duodenum Smooth Muscle	Duodenum
31	chr6:35490800-35491200	Active TSS	Pancreatic Islets	Pancreatic Islet
32	chr6:35490800-35491200	Active TSS	Fetal Lung	lung
33	chr6:35490800-35491200	Flanking Active TSS	Fetal Muscle Trunk	muscle
34	chr6:35490800-35491200	Flanking Active TSS	GM12878-XiMat	blood
35	chr6:35490800-35491200	Flanking Active TSS	HUVEC	blood vessel
36	chr6:35490800-35491400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:35491000-35491200	Active TSS	Breast Myoepithelial Primary Cells	Breast
38	chr6:35491000-35491200	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr6:35491000-35491200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:35491000-35491200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:35491000-35491200	Flanking Active TSS	Brain Hippocampus Middle	brain
42	chr6:35491000-35491200	Bivalent Enhancer	Fetal Muscle Leg	muscle
43	chr6:35491000-35491200	Active TSS	Skeletal Muscle Male	skeletal muscle
44	chr6:35491000-35491200	Active TSS	Skeletal Muscle Female	skeletal muscle
45	chr6:35491000-35491200	Active TSS	Thymus	Thymus
46	chr6:35491000-35491200	Enhancers	Hela-S3	cervix
47	chr6:35491000-35491200	Bivalent Enhancer	HepG2	liver
48	chr6:35491000-35491200	Active TSS	Monocytes-CD14+_RO01746	blood
49	chr6:35491000-35491200	Active TSS	NHEK	skin
50	chr6:35491000-35491800	Enhancers	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links