Variant report

Variant	rs59678983
Chromosome Location	chr4:26887499-26887500
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10028164	1.00[EUR][1000 genomes]
rs10031905	1.00[EUR][1000 genomes]
rs1035075	1.00[EUR][1000 genomes]
rs1860981	1.00[EUR][1000 genomes]
rs2192241	1.00[EUR][1000 genomes]
rs2309497	1.00[EUR][1000 genomes]
rs28489605	1.00[EUR][1000 genomes]
rs4129747	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4140681	1.00[EUR][1000 genomes]
rs4599399	1.00[EUR][1000 genomes]
rs4692016	1.00[EUR][1000 genomes]
rs4692017	1.00[EUR][1000 genomes]
rs4692018	1.00[EUR][1000 genomes]
rs4692138	1.00[EUR][1000 genomes]
rs55646519	1.00[EUR][1000 genomes]
rs56001106	1.00[EUR][1000 genomes]
rs56783998	0.82[AFR][1000 genomes]
rs56810203	1.00[EUR][1000 genomes]
rs57668778	1.00[EUR][1000 genomes]
rs57810647	1.00[EUR][1000 genomes]
rs59530500	1.00[EUR][1000 genomes]
rs61084398	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6448490	1.00[EUR][1000 genomes]
rs6841079	1.00[EUR][1000 genomes]
rs6858361	1.00[EUR][1000 genomes]
rs73116642	1.00[EUR][1000 genomes]
rs73116643	1.00[EUR][1000 genomes]
rs73116645	1.00[EUR][1000 genomes]
rs73116652	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73116653	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73116655	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73116657	1.00[EUR][1000 genomes]
rs73116660	1.00[EUR][1000 genomes]
rs73116665	1.00[EUR][1000 genomes]
rs73116670	1.00[EUR][1000 genomes]
rs73116672	1.00[EUR][1000 genomes]
rs73116675	1.00[EUR][1000 genomes]
rs7670520	1.00[EUR][1000 genomes]
rs7688601	1.00[EUR][1000 genomes]
rs887792	1.00[EUR][1000 genomes]
rs887794	1.00[EUR][1000 genomes]
rs9790760	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1001306	chr4:26821511-26955344	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv2334135	chr4:26887262-26887668	Active TSS Weak transcription Flanking Active TSS Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26875600-26904600	Weak transcription	Brain Anterior Caudate	brain
2	chr4:26875800-26888200	Weak transcription	Adipose Nuclei	Adipose
3	chr4:26880600-26902400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:26880600-26921600	Weak transcription	Fetal Muscle Trunk	muscle
5	chr4:26881800-26896200	Weak transcription	HMEC	breast
6	chr4:26882000-26887800	Weak transcription	Stomach Mucosa	stomach
7	chr4:26882000-26897000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:26882200-26889000	Weak transcription	K562	blood
9	chr4:26883400-26892800	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr4:26884600-26888000	Weak transcription	Spleen	Spleen
11	chr4:26885000-26887600	Enhancers	Primary hematopoietic stem cells	blood
12	chr4:26885000-26887600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr4:26885200-26888600	Flanking Active TSS	Primary B cells from cord blood	blood
14	chr4:26885400-26889200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
15	chr4:26885400-26889200	Flanking Active TSS	Dnd41	blood
16	chr4:26885600-26887600	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr4:26885600-26887800	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr4:26885800-26890800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:26885800-26903600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr4:26886000-26887600	Weak transcription	Fetal Thymus	thymus
21	chr4:26886000-26888000	Active TSS	Primary T cells fromperipheralblood	blood
22	chr4:26886000-26894400	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr4:26886000-26896200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr4:26886200-26888200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr4:26886400-26887600	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr4:26886400-26887800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
27	chr4:26886400-26888000	Weak transcription	Rectal Smooth Muscle	rectum
28	chr4:26886400-26888200	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr4:26886400-26890600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr4:26886600-26887600	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr4:26886600-26887800	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr4:26886600-26887800	Enhancers	Primary B cells from peripheral blood	blood
33	chr4:26886600-26888000	Weak transcription	Small Intestine	intestine
34	chr4:26886600-26888000	Weak transcription	Thymus	Thymus
35	chr4:26886600-26888400	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr4:26886600-26899400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr4:26886600-26921600	Weak transcription	Fetal Muscle Leg	muscle
38	chr4:26886800-26887600	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr4:26886800-26887600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr4:26887000-26887600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr4:26887000-26887800	Weak transcription	Duodenum Mucosa	Duodenum
42	chr4:26887000-26889000	Weak transcription	Brain Hippocampus Middle	brain
43	chr4:26887000-26889200	Enhancers	Brain Substantia Nigra	brain
44	chr4:26887000-26891000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr4:26887200-26887600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr4:26887200-26887600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
47	chr4:26887200-26887800	Enhancers	Rectal Mucosa Donor 29	rectum
48	chr4:26887200-26887800	Active TSS	GM12878-XiMat	blood
49	chr4:26887200-26888200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr4:26887200-26888800	Active TSS	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links