Variant report

Variant	rs6502439
Chromosome Location	chr17:15142316-15142317
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	chr17:15141620..15144073-chr17:15150924..15153203,2	K562	blood:
2	chr17:15140658..15142879-chr17:15167225..15168851,2	K562	blood:

Variant related genes	Relation type
ENSG00000109099	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs13027	0.91[EUR][1000 genomes]
rs16951239	0.93[EUR][1000 genomes]
rs2215236	0.91[EUR][1000 genomes]
rs3744333	0.91[EUR][1000 genomes]
rs3785653	0.93[EUR][1000 genomes]
rs3785654	0.93[EUR][1000 genomes]
rs4791614	0.83[EUR][1000 genomes]
rs59723054	0.91[EUR][1000 genomes]
rs7215851	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7221491	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72812936	0.91[EUR][1000 genomes]
rs72812942	0.93[EUR][1000 genomes]
rs72812947	0.91[EUR][1000 genomes]
rs73977960	0.85[EUR][1000 genomes]
rs73977961	0.85[EUR][1000 genomes]
rs740649	0.91[EUR][1000 genomes]
rs9889622	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9899379	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066329	chr17:14983674-15294071	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv543212	chr17:14983674-15294071	Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15131600-15145600	Strong transcription	Fetal Muscle Trunk	muscle
2	chr17:15132200-15144400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr17:15132200-15158800	Weak transcription	Hela-S3	cervix
4	chr17:15132400-15143200	Strong transcription	HSMMtube	muscle
5	chr17:15132600-15142800	Weak transcription	Esophagus	oesophagus
6	chr17:15134400-15151000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr17:15134600-15143200	Strong transcription	HSMM	muscle
8	chr17:15135200-15144800	Genic enhancers	Colon Smooth Muscle	Colon
9	chr17:15135600-15142400	Genic enhancers	NHDF-Ad	bronchial
10	chr17:15135600-15143400	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr17:15135800-15151200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr17:15135800-15160200	Weak transcription	Pancreas	Pancrea
13	chr17:15137000-15151200	Weak transcription	Fetal Intestine Small	intestine
14	chr17:15137200-15158000	Weak transcription	Stomach Mucosa	stomach
15	chr17:15137400-15142400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr17:15137400-15143400	Strong transcription	Fetal Muscle Leg	muscle
17	chr17:15137800-15143000	Strong transcription	Stomach Smooth Muscle	stomach
18	chr17:15138000-15144200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr17:15138400-15143000	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr17:15138600-15142600	Strong transcription	Ovary	ovary
21	chr17:15138600-15144200	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr17:15139000-15143000	Strong transcription	Brain Anterior Caudate	brain
23	chr17:15139000-15143000	Genic enhancers	Skeletal Muscle Female	skeletal muscle
24	chr17:15139000-15143400	Strong transcription	Duodenum Smooth Muscle	Duodenum
25	chr17:15139000-15152800	Weak transcription	Colonic Mucosa	Colon
26	chr17:15139400-15143000	Strong transcription	Muscle Satellite Cultured Cells	--
27	chr17:15139400-15143000	Genic enhancers	Right Ventricle	heart
28	chr17:15139400-15143200	Genic enhancers	Adipose Nuclei	Adipose
29	chr17:15139400-15143600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr17:15139600-15143000	Strong transcription	HUVEC	blood vessel
31	chr17:15139800-15142600	Strong transcription	Placenta	Placenta
32	chr17:15139800-15143000	Strong transcription	Brain Inferior Temporal Lobe	brain
33	chr17:15139800-15148400	Weak transcription	Right Atrium	heart
34	chr17:15139800-15151200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr17:15139800-15160200	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr17:15140000-15142600	Strong transcription	Brain Angular Gyrus	brain
37	chr17:15140000-15145800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr17:15140200-15142600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr17:15140200-15147800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr17:15140200-15151000	Weak transcription	HMEC	breast
41	chr17:15140400-15142600	Strong transcription	NH-A	brain
42	chr17:15140400-15143000	Strong transcription	Osteobl	bone
43	chr17:15140400-15143200	Strong transcription	Fetal Lung	lung
44	chr17:15140600-15143000	Strong transcription	Brain Cingulate Gyrus	brain
45	chr17:15140600-15143000	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr17:15140600-15143000	Strong transcription	Sigmoid Colon	Sigmoid Colon
47	chr17:15140600-15143000	Strong transcription	NHLF	lung
48	chr17:15140800-15142600	Genic enhancers	Fetal Heart	heart
49	chr17:15140800-15144000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr17:15141000-15143200	Strong transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links