Variant report

Variant	rs13199598
Chromosome Location	chr6:15691100-15691101
allele	A/G
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:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 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	chr6:15690648..15692191-chr6:16182692..16184675,12	K562	blood:
6	chr6:15690698..15692334-chr6:16182695..16185259,24	MCF-7	breast:
7	chr6:15681708..15684305-chr6:15689801..15691675,2	K562	blood:
8	chr6:15691034..15692122-chr6:16128597..16129547,5	K562	blood:
9	chr6:15686242..15688880-chr6:15691006..15692946,2	K562	blood:
10	chr6:15690304..15694051-chr6:16129108..16131986,7	K562	blood:
11	chr6:15628080..15630749-chr6:15690393..15693220,2	K562	blood:
12	chr6:15661124..15663645-chr6:15690658..15693451,3	K562	blood:
13	chr6:15687288..15693257-chr6:16127517..16131016,8	K562	blood:
14	chr6:15688875..15695962-chr6:16127988..16134034,16	MCF-7	breast:
15	chr6:15690815..15692594-chr6:16152230..16153735,2	K562	blood:
16	chr6:15690395..15693320-chr6:16127608..16130843,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction
ENSG00000047579	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11963843	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13192922	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13206289	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13206437	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13207538	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13213868	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13213990	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17407828	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17408240	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17473363	0.90[EUR][1000 genomes]
rs17473553	0.92[EUR][1000 genomes]
rs17473769	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17473810	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17473838	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17473930	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34297195	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34303993	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34872116	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35510319	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35513974	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57292248	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61568456	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67330366	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67370907	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6906528	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917701	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6921842	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6922764	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6922963	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6937887	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6941398	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71554534	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71554536	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7741874	0.92[EUR][1000 genomes]
rs7759904	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7763446	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7763614	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs977746	0.81[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

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15689000-15692200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr6:15689600-15691200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:15690000-15691600	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr6:15690000-15691600	Enhancers	Fetal Intestine Large	intestine
5	chr6:15690000-15692000	Enhancers	Fetal Intestine Small	intestine
6	chr6:15690400-15691200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:15690400-15691200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr6:15690400-15691200	Enhancers	Duodenum Mucosa	Duodenum
9	chr6:15690400-15691200	Enhancers	Left Ventricle	heart
10	chr6:15690400-15691200	Enhancers	Psoas Muscle	Psoas
11	chr6:15690400-15691200	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr6:15690400-15691200	Enhancers	NHDF-Ad	bronchial
13	chr6:15690400-15691400	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr6:15690400-15691400	Enhancers	K562	blood
15	chr6:15690400-15691600	Enhancers	Liver	Liver
16	chr6:15690400-15691800	Enhancers	Fetal Muscle Leg	muscle
17	chr6:15690400-15692000	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr6:15690600-15691200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:15690600-15691600	Enhancers	Colonic Mucosa	Colon
20	chr6:15690600-15692000	Enhancers	Fetal Heart	heart
21	chr6:15690600-15692000	Enhancers	Stomach Mucosa	stomach
22	chr6:15690600-15692000	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr6:15690800-15691200	Enhancers	HepG2	liver
24	chr6:15690800-15691200	Enhancers	NHLF	lung
25	chr6:15690800-15691400	Enhancers	HSMM	muscle
26	chr6:15690800-15691400	Enhancers	HSMMtube	muscle
27	chr6:15690800-15691600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr6:15690800-15691600	Enhancers	Fetal Thymus	thymus
29	chr6:15690800-15691600	Enhancers	HMEC	breast
30	chr6:15690800-15691800	Enhancers	Fetal Lung	lung
31	chr6:15690800-15691800	Enhancers	HUVEC	blood vessel
32	chr6:15691000-15691200	Enhancers	Colon Smooth Muscle	Colon
33	chr6:15691000-15691200	Enhancers	Duodenum Smooth Muscle	Duodenum
34	chr6:15691000-15691400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:15691000-15691400	Enhancers	Fetal Kidney	kidney
36	chr6:15691000-15691400	Enhancers	Dnd41	blood
37	chr6:15691000-15691600	Flanking Active TSS	Adipose Nuclei	Adipose
38	chr6:15691000-15691600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
39	chr6:15691000-15691600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
40	chr6:15691000-15691600	Flanking Active TSS	Osteobl	bone
41	chr6:15691000-15692200	Enhancers	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links