Variant report

Variant	rs28364240
Chromosome Location	chr11:67120530-67120531
allele	C/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:25)
LncRNA
region (count:7)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:25 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:67120530..67121080-chr3:135914391..135915327,2	Hela-S3	cervix:
2	chr11:67120500..67121333-chr12:120730303..120731275,2	Hela-S3	cervix:
3	chr11:67116951..67127260-chr11:67135118..67146037,42	K562	blood:
4	chr11:67119569..67122629-chr11:67231645..67234377,4	MCF-7	breast:
5	chr11:67119765..67126816-chr11:67129168..67134805,10	K562	blood:
6	chr11:67031980..67036845-chr11:67115804..67121447,10	MCF-7	breast:
7	chr11:67069460..67071861-chr11:67118830..67121727,4	MCF-7	breast:
8	chr11:67074129..67076451-chr11:67118933..67121645,2	MCF-7	breast:
9	chr11:66790383..66792489-chr11:67119405..67122102,2	MCF-7	breast:
10	chr11:67118066..67122624-chr11:67272137..67276691,11	MCF-7	breast:
11	chr11:67054960..67058476-chr11:67120507..67123269,5	MCF-7	breast:
12	chr11:67029982..67035321-chr11:67120482..67125805,6	K562	blood:
13	chr11:67120355..67120891-chr11:67141344..67142247,2	MCF-7	breast:
14	chr11:67040558..67045868-chr11:67119770..67124610,5	K562	blood:
15	chr11:67032309..67036659-chr11:67119174..67122793,5	MCF-7	breast:
16	chr11:67119767..67122418-chr11:67248932..67250571,2	MCF-7	breast:
17	chr11:67054274..67056695-chr11:67119376..67121625,2	K562	blood:
18	chr11:67119033..67122416-chr11:67186034..67189246,4	K562	blood:
19	chr11:66823856..66826117-chr11:67119023..67120687,3	MCF-7	breast:
20	chr11:67119575..67122290-chr11:67202664..67205561,2	K562	blood:
21	chr1:110526988..110527875-chr11:67120451..67121346,2	Hela-S3	cervix:
22	chr11:62608700..62609468-chr11:67120338..67120991,2	Hela-S3	cervix:
23	chr11:67116454..67122701-chr11:67156914..67162562,7	K562	blood:
24	chr11:67006044..67008912-chr11:67118920..67122236,4	K562	blood:
25	chr11:67075683..67087551-chr11:67114391..67125856,27	MCF-7	breast:

(count:7 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CLCF1-1	chr11:67120162-67120549	NONHSAT022401
2	lnc-CLCF1-1	chr11:67119024-67120548	NONHSAT022402
3	lnc-CLCF1-1	chr11:67119036-67120548	NONHSAT022403
4	lnc-CLCF1-1	chr11:67120459-67120996	NONHSAT022406
5	lnc-RAD9A-4	chr11:67120004-67121134	NONHSAT022407
6	lnc-CLCF1-1	chr11:67120459-67120631	NONHSAT022405
7	lnc-CLCF1-1	chr11:67120364-67120582	NONHSAT022408

No data

Variant related genes	Relation type
ENSG00000172830	Chromatin interaction
ENSG00000200795	Chromatin interaction
ENSG00000173227	Chromatin interaction
ENSG00000256514	Chromatin interaction
ENSG00000110711	Chromatin interaction
ENSG00000173156	Chromatin interaction
ENSG00000172531	Chromatin interaction
ENSG00000172613	Chromatin interaction
ENSG00000255949	Chromatin interaction
ENSG00000174579	Chromatin interaction
ENSG00000173020	Chromatin interaction
ENSG00000173120	Chromatin interaction
ENSG00000172663	Chromatin interaction
ENSG00000172508	Chromatin interaction
ENSG00000213402	Chromatin interaction
ENSG00000168710	Chromatin interaction
ENSG00000110697	Chromatin interaction
ENSG00000175505	Chromatin interaction
ENSG00000172932	Chromatin interaction
ENSG00000167797	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000201684	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12279818	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12285097	0.83[AMR][1000 genomes]
rs12417116	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12417429	1.00[EUR][1000 genomes]
rs12417770	0.88[AMR][1000 genomes]
rs12418407	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12421018	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1573536	0.88[AMR][1000 genomes]
rs1574103	0.89[AMR][1000 genomes]
rs17148183	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17884022	1.00[EUR][1000 genomes]
rs17885585	1.00[EUR][1000 genomes]
rs1871033	1.00[EUR][1000 genomes]
rs1871044	1.00[EUR][1000 genomes]
rs2066494	1.00[EUR][1000 genomes]
rs3730140	0.85[AMR][1000 genomes]
rs4382915	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4567468	0.83[AMR][1000 genomes]
rs4930198	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4930416	0.85[AMR][1000 genomes]
rs4930432	1.00[EUR][1000 genomes]
rs4930435	1.00[EUR][1000 genomes]
rs61731786	0.88[AMR][1000 genomes]
rs61758493	0.81[AMR][1000 genomes]
rs61759803	0.81[AMR][1000 genomes]
rs61759806	0.81[AMR][1000 genomes]
rs885833	0.85[AMR][1000 genomes]
rs887315	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs887316	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531397	chr11:66653381-67465721	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv933183	chr11:67008447-67160993	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	nsv897796	chr11:67021518-67186000	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
4	nsv897797	chr11:67023040-67293234	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	206 gene(s)	inside rSNPs	diseases
5	nsv1043037	chr11:67027193-67357425	Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
6	nsv468603	chr11:67033076-67164495	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
7	nsv555253	chr11:67033076-67164495	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
8	nsv897801	chr11:67033076-67432479	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
9	nsv1047890	chr11:67058231-67184436	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
10	nsv1048230	chr11:67058231-67252397	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	146 gene(s)	inside rSNPs	diseases
11	nsv897804	chr11:67090571-67224278	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:67118800-67120600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr11:67119000-67120800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr11:67119400-67121200	Active TSS	HSMM	muscle
4	chr11:67119400-67121400	Active TSS	GM12878-XiMat	blood
5	chr11:67119400-67121400	Active TSS	HSMMtube	muscle
6	chr11:67119400-67121800	Flanking Active TSS	Primary B cells from cord blood	blood
7	chr11:67119600-67120800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
8	chr11:67119600-67120800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
9	chr11:67119800-67120800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr11:67119800-67121400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr11:67120000-67120600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr11:67120000-67120600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
13	chr11:67120000-67120600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
14	chr11:67120000-67120600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr11:67120000-67120600	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
16	chr11:67120000-67120600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
17	chr11:67120000-67120600	Flanking Active TSS	Brain Anterior Caudate	brain
18	chr11:67120000-67120600	Flanking Active TSS	Brain Cingulate Gyrus	brain
19	chr11:67120000-67120600	Flanking Active TSS	Brain Germinal Matrix	brain
20	chr11:67120000-67120600	Flanking Active TSS	Brain Hippocampus Middle	brain
21	chr11:67120000-67120600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
22	chr11:67120000-67120600	Flanking Active TSS	Duodenum Mucosa	Duodenum
23	chr11:67120000-67120600	Flanking Active TSS	Fetal Stomach	stomach
24	chr11:67120000-67120600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
25	chr11:67120000-67120600	Flanking Active TSS	Right Ventricle	heart
26	chr11:67120000-67120600	Flanking Active TSS	Stomach Smooth Muscle	stomach
27	chr11:67120000-67120600	Active TSS	HepG2	liver
28	chr11:67120000-67120600	Flanking Active TSS	K562	blood
29	chr11:67120000-67120600	Flanking Active TSS	NH-A	brain
30	chr11:67120000-67120800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr11:67120000-67120800	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr11:67120000-67120800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
33	chr11:67120000-67120800	Flanking Active TSS	Primary T cells fromperipheralblood	blood
34	chr11:67120000-67120800	Flanking Active TSS	Primary hematopoietic stem cells	blood
35	chr11:67120000-67120800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
36	chr11:67120000-67120800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
37	chr11:67120000-67120800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr11:67120000-67120800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
39	chr11:67120000-67120800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr11:67120000-67120800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr11:67120000-67120800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr11:67120000-67120800	Flanking Active TSS	Adipose Nuclei	Adipose
43	chr11:67120000-67120800	Flanking Active TSS	Liver	Liver
44	chr11:67120000-67120800	Flanking Active TSS	Colonic Mucosa	Colon
45	chr11:67120000-67120800	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
46	chr11:67120000-67120800	Flanking Active TSS	Fetal Muscle Leg	muscle
47	chr11:67120000-67120800	Flanking Active TSS	Placenta	Placenta
48	chr11:67120000-67120800	Flanking Active TSS	Fetal Thymus	thymus
49	chr11:67120000-67120800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
50	chr11:67120000-67120800	Flanking Active TSS	Dnd41	blood

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