Variant report

Variant	rs6941398
Chromosome Location	chr6:15691738-15691739
allele	C/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:31)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:31 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15690995..15692665-chr6:16183171..16185232,18	MCF-7	breast:
2	chr6:15690946..15692172-chr6:16206408..16207438,18	K562	blood:
3	chr6:15689774..15693088-chr6:16205829..16209132,3	K562	blood:
4	chr6:15690838..15692168-chr6:16205606..16207465,12	MCF-7	breast:
5	chr6:15691679..15692211-chr6:15736266..15736989,2	K562	blood:
6	chr6:15690648..15692191-chr6:16182692..16184675,12	K562	blood:
7	chr6:15691190..15692210-chr6:16168870..16169806,7	K562	blood:
8	chr6:15691113..15692695-chr6:16128540..16129716,25	MCF-7	breast:
9	chr6:15244123..15245961-chr6:15691500..15694136,2	K562	blood:
10	chr6:15690698..15692334-chr6:16182695..16185259,24	MCF-7	breast:
11	chr6:15691382..15692187-chr6:16036682..16037471,3	MCF-7	breast:
12	chr6:15691034..15692122-chr6:16128597..16129547,5	K562	blood:
13	chr6:15686242..15688880-chr6:15691006..15692946,2	K562	blood:
14	chr6:15691207..15692253-chr6:16128861..16130251,7	MCF-7	breast:
15	chr6:15691223..15691812-chr6:15803377..15804019,2	K562	blood:
16	chr6:15691225..15691779-chr6:15754462..15755009,2	MCF-7	breast:
17	chr6:15690304..15694051-chr6:16129108..16131986,7	K562	blood:
18	chr6:15628080..15630749-chr6:15690393..15693220,2	K562	blood:
19	chr6:15691300..15692107-chr6:16168761..16169885,4	MCF-7	breast:
20	chr6:15691598..15692189-chr6:15752757..15753288,2	MCF-7	breast:
21	chr6:15691562..15692201-chr6:16088248..16088808,2	MCF-7	breast:
22	chr6:15661124..15663645-chr6:15690658..15693451,3	K562	blood:
23	chr6:15691668..15694295-chr6:16137478..16139705,2	K562	blood:
24	chr6:15691584..15692147-chr6:16171307..16172061,2	MCF-7	breast:
25	chr6:15687288..15693257-chr6:16127517..16131016,8	K562	blood:
26	chr6:15691148..15692183-chr6:16168724..16169738,7	MCF-7	breast:
27	chr6:15688875..15695962-chr6:16127988..16134034,16	MCF-7	breast:
28	chr6:15690815..15692594-chr6:16152230..16153735,2	K562	blood:
29	chr6:15691192..15692197-chr6:16277250..16278145,4	K562	blood:
30	chr6:15691141..15692187-chr6:16128576..16130145,22	MCF-7	breast:
31	chr6:15690395..15693320-chr6:16127608..16130843,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000047579	Chromatin interaction
ENSG00000271888	Chromatin interaction
ENSG00000007944	Chromatin interaction
ENSG00000216364	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10484353	0.86[YRI][hapmap]
rs11963843	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13192922	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13199598	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13206289	1.00[CEU][hapmap];0.87[GIH][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13206437	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13207538	0.93[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13213868	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13213990	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17407828	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17408240	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17473363	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17473553	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17473769	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17473810	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17473838	0.95[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17473930	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17475195	0.85[MEX][hapmap]
rs34297195	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34303993	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34872116	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35510319	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35513974	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57292248	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61568456	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67330366	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67370907	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6906528	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917701	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6921842	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6922764	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6922963	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6937887	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71554534	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71554536	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7741874	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7759904	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7763446	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7763614	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs977746	0.95[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.90[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	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv2607475	chr6:15664805-15717086	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv2757157	chr6:15668867-15725478	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv2759408	chr6:15668867-15725478	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3692888	chr6:15675641-15694811	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv433377	chr6:15686225-15713759	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6941398	DEK	cis	parietal	SCAN

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15689000-15692200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr6:15690000-15692000	Enhancers	Fetal Intestine Small	intestine
3	chr6:15690400-15691800	Enhancers	Fetal Muscle Leg	muscle
4	chr6:15690400-15692000	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr6:15690600-15692000	Enhancers	Fetal Heart	heart
6	chr6:15690600-15692000	Enhancers	Stomach Mucosa	stomach
7	chr6:15690600-15692000	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr6:15690800-15691800	Enhancers	Fetal Lung	lung
9	chr6:15690800-15691800	Enhancers	HUVEC	blood vessel
10	chr6:15691000-15692200	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr6:15691200-15691800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr6:15691200-15691800	Enhancers	Fetal Stomach	stomach
13	chr6:15691200-15691800	Weak transcription	Psoas Muscle	Psoas
14	chr6:15691200-15692000	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr6:15691200-15692000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr6:15691200-15692200	Enhancers	Primary B cells from peripheral blood	blood
17	chr6:15691200-15692200	Active TSS	Aorta	Aorta
18	chr6:15691200-15692200	Active TSS	Rectal Smooth Muscle	rectum
19	chr6:15691200-15692200	Active TSS	Stomach Smooth Muscle	stomach
20	chr6:15691200-15692200	Active TSS	NHDF-Ad	bronchial
21	chr6:15691400-15691800	Enhancers	Brain Substantia Nigra	brain
22	chr6:15691400-15692000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr6:15691400-15692000	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr6:15691400-15692000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:15691400-15692000	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr6:15691400-15692000	Enhancers	Brain Cingulate Gyrus	brain
27	chr6:15691400-15692000	Active TSS	GM12878-XiMat	blood
28	chr6:15691400-15692000	Active TSS	HSMM	muscle
29	chr6:15691400-15692000	Active TSS	NHLF	lung
30	chr6:15691400-15692200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr6:15691400-15692200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:15691400-15692200	Active TSS	Brain Hippocampus Middle	brain
33	chr6:15691400-15692200	Active TSS	Duodenum Smooth Muscle	Duodenum
34	chr6:15691400-15692200	Active TSS	HSMMtube	muscle
35	chr6:15691400-15692400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:15691600-15691800	Active TSS	Muscle Satellite Cultured Cells	--
37	chr6:15691600-15691800	Active TSS	Adipose Nuclei	Adipose
38	chr6:15691600-15691800	Enhancers	Brain Anterior Caudate	brain
39	chr6:15691600-15691800	Active TSS	Duodenum Mucosa	Duodenum
40	chr6:15691600-15691800	Enhancers	Fetal Muscle Trunk	muscle
41	chr6:15691600-15691800	Active TSS	Rectal Mucosa Donor 31	rectum
42	chr6:15691600-15691800	Enhancers	Dnd41	blood
43	chr6:15691600-15691800	Enhancers	K562	blood
44	chr6:15691600-15691800	Active TSS	Osteobl	bone
45	chr6:15691600-15692000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
46	chr6:15691600-15692000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
47	chr6:15691600-15692000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:15691600-15692000	Flanking Active TSS	Colonic Mucosa	Colon
49	chr6:15691600-15692000	Active TSS	Fetal Kidney	kidney
50	chr6:15691600-15692000	Active TSS	Skeletal Muscle Male	skeletal muscle

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