Variant report

Variant	rs59944002
Chromosome Location	chr15:75997463-75997464
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12102136	1.00[AMR][1000 genomes]
rs16967294	1.00[AMR][1000 genomes]
rs28372561	1.00[AMR][1000 genomes]
rs28395383	1.00[AMR][1000 genomes]
rs28396803	1.00[AMR][1000 genomes]
rs28398053	1.00[AMR][1000 genomes]
rs28412110	1.00[AMR][1000 genomes]
rs28413637	1.00[AMR][1000 genomes]
rs28414758	1.00[AMR][1000 genomes]
rs28420558	1.00[AMR][1000 genomes]
rs28432282	1.00[AMR][1000 genomes]
rs28450740	1.00[AMR][1000 genomes]
rs28504376	1.00[AMR][1000 genomes]
rs28505697	1.00[AMR][1000 genomes]
rs28510991	1.00[AMR][1000 genomes]
rs28519586	1.00[AMR][1000 genomes]
rs28530778	1.00[AMR][1000 genomes]
rs28533248	1.00[AMR][1000 genomes]
rs28550881	1.00[AMR][1000 genomes]
rs28567605	1.00[AMR][1000 genomes]
rs28628290	1.00[AMR][1000 genomes]
rs28628820	1.00[AMR][1000 genomes]
rs28645531	1.00[AMR][1000 genomes]
rs28664638	1.00[AMR][1000 genomes]
rs28677951	1.00[AMR][1000 genomes]
rs28695912	1.00[AMR][1000 genomes]
rs28711283	1.00[AMR][1000 genomes]
rs28727341	1.00[AMR][1000 genomes]
rs3991368	1.00[AMR][1000 genomes]
rs56686272	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57267837	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58167659	1.00[AMR][1000 genomes]
rs58689645	1.00[AMR][1000 genomes]
rs60159975	1.00[AMR][1000 genomes]
rs60465775	1.00[AMR][1000 genomes]
rs60544586	1.00[AMR][1000 genomes]
rs73439281	1.00[AMR][1000 genomes]
rs73439290	1.00[AMR][1000 genomes]
rs73439302	1.00[AMR][1000 genomes]
rs73442996	1.00[AMR][1000 genomes]
rs73444997	1.00[AMR][1000 genomes]
rs8033538	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531901	chr15:75600108-76019966	Genic enhancers Flanking Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	esv3445070	chr15:75623136-76045948	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv1048028	chr15:75637515-76019967	Strong transcription Genic enhancers Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	161 gene(s)	inside rSNPs	diseases
4	nsv542436	chr15:75637515-76019967	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	161 gene(s)	inside rSNPs	diseases
5	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
6	esv1813854	chr15:75898640-76002392	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
7	nsv527186	chr15:75924443-76107730	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
8	nsv904391	chr15:75930757-76001654	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
9	nsv904392	chr15:75930757-76039262	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
10	nsv904393	chr15:75932177-76001654	Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases
11	nsv904394	chr15:75948671-76039262	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
12	nsv904396	chr15:75961518-76071105	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
13	nsv984092	chr15:75970252-76000687	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75985800-75998800	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr15:75987000-75998600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:75987200-75998000	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr15:75987400-75998600	Weak transcription	Gastric	stomach
5	chr15:75987800-76004800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr15:75990000-75998400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr15:75990200-75999400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr15:75991600-76000200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:75992000-75998200	Enhancers	Fetal Heart	heart
10	chr15:75992400-75998200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr15:75993000-76005000	Weak transcription	Brain Germinal Matrix	brain
12	chr15:75993200-76001800	Weak transcription	Fetal Brain Male	brain
13	chr15:75993400-75999800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr15:75993400-76001600	Weak transcription	Ovary	ovary
15	chr15:75993600-76001000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:75994800-76001600	Weak transcription	Spleen	Spleen
17	chr15:75995000-75998200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr15:75995000-75998200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr15:75995000-75998200	Weak transcription	Fetal Lung	lung
20	chr15:75995200-76000800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr15:75995600-75998000	Enhancers	Colon Smooth Muscle	Colon
22	chr15:75995800-75997600	Enhancers	Placenta	Placenta
23	chr15:75995800-75997800	Enhancers	Hela-S3	cervix
24	chr15:75995800-75998000	Enhancers	NHDF-Ad	bronchial
25	chr15:75995800-76001600	Enhancers	Adipose Nuclei	Adipose
26	chr15:75996400-76001400	Genic enhancers	Fetal Muscle Trunk	muscle
27	chr15:75996600-75997600	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr15:75996600-75997600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr15:75996600-75997600	Strong transcription	Fetal Intestine Small	intestine
30	chr15:75996600-75998200	Enhancers	Rectal Smooth Muscle	rectum
31	chr15:75996600-75998400	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr15:75996600-75999000	Genic enhancers	Fetal Stomach	stomach
33	chr15:75996600-76001600	Genic enhancers	Fetal Muscle Leg	muscle
34	chr15:75996800-75997600	Enhancers	HSMMtube	muscle
35	chr15:75996800-75998800	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr15:75996800-75999000	Genic enhancers	NHLF	lung
37	chr15:75996800-76000000	Weak transcription	NHEK	skin
38	chr15:75997000-75998200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:75997000-75998400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr15:75997000-75998400	Weak transcription	NH-A	brain
41	chr15:75997000-75998800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr15:75997000-76001400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:75997000-76002600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr15:75997000-76003400	Weak transcription	HMEC	breast
45	chr15:75997200-75998000	Weak transcription	Aorta	Aorta
46	chr15:75997200-75998200	Weak transcription	Brain Cingulate Gyrus	brain
47	chr15:75997200-75998200	Weak transcription	Esophagus	oesophagus
48	chr15:75997200-75998200	Weak transcription	Left Ventricle	heart
49	chr15:75997200-75998200	Weak transcription	Right Atrium	heart
50	chr15:75997200-75998600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links