Variant report

Variant	rs6825721
Chromosome Location	chr4:48566374-48566375
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs17656189	1.00[YRI][hapmap]
rs56837574	1.00[AFR][1000 genomes]
rs58018957	1.00[AFR][1000 genomes]
rs58763365	0.83[AFR][1000 genomes]
rs60553677	0.83[AFR][1000 genomes]
rs60750323	1.00[AFR][1000 genomes]
rs6447653	1.00[AFR][1000 genomes]
rs6810558	1.00[YRI][hapmap]
rs6811201	0.83[AFR][1000 genomes]
rs6854313	1.00[AFR][1000 genomes]
rs73814790	1.00[AFR][1000 genomes]
rs73814792	1.00[AFR][1000 genomes]
rs73814793	1.00[AFR][1000 genomes]
rs73814794	1.00[AFR][1000 genomes]
rs73814796	1.00[AFR][1000 genomes]
rs73814797	1.00[AFR][1000 genomes]
rs73815309	1.00[AFR][1000 genomes]
rs73815310	1.00[AFR][1000 genomes]
rs73815313	1.00[AFR][1000 genomes]
rs73815320	0.83[AFR][1000 genomes]
rs73815323	1.00[AFR][1000 genomes]
rs73817830	1.00[AFR][1000 genomes]
rs73817831	1.00[AFR][1000 genomes]
rs73817833	1.00[AFR][1000 genomes]
rs7665696	1.00[YRI][hapmap];1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470034	chr4:48427773-48605628	Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
2	nsv594121	chr4:48427773-48605628	Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv829925	chr4:48467693-48639342	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1002674	chr4:48507608-49032909	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv537087	chr4:48507608-49032909	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48498600-48593000	Strong transcription	Rectal Mucosa Donor 31	rectum
2	chr4:48499000-48578800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr4:48499000-48589400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr4:48499600-48581400	Strong transcription	Dnd41	blood
5	chr4:48500200-48588800	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr4:48501400-48578600	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr4:48504400-48575400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:48505200-48575400	Strong transcription	Primary T helper cells PMA-I stimulated	--
9	chr4:48507600-48568600	Strong transcription	Primary T cells from cord blood	blood
10	chr4:48515800-48625000	Weak transcription	Hela-S3	cervix
11	chr4:48525000-48595600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr4:48528200-48596000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr4:48540600-48580400	Strong transcription	Fetal Intestine Large	intestine
14	chr4:48540800-48576000	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr4:48541000-48580600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr4:48541000-48587800	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr4:48541200-48566600	Strong transcription	Primary B cells from peripheral blood	blood
18	chr4:48541200-48567000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr4:48541200-48594000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr4:48541400-48581200	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr4:48541600-48568800	Strong transcription	Placenta	Placenta
22	chr4:48541600-48581400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr4:48541800-48579800	Strong transcription	Duodenum Mucosa	Duodenum
24	chr4:48542400-48568200	Strong transcription	Brain Substantia Nigra	brain
25	chr4:48542800-48604400	Weak transcription	A549	lung
26	chr4:48545200-48618200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr4:48546000-48571800	Weak transcription	Psoas Muscle	Psoas
28	chr4:48546400-48596400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr4:48546600-48578600	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr4:48547400-48578800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr4:48547400-48593600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr4:48549400-48575600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr4:48549600-48566400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr4:48549600-48569200	Strong transcription	Duodenum Smooth Muscle	Duodenum
35	chr4:48549600-48569400	Strong transcription	Liver	Liver
36	chr4:48549600-48570200	Strong transcription	Fetal Lung	lung
37	chr4:48550000-48567800	Strong transcription	HUVEC	blood vessel
38	chr4:48550200-48568400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr4:48552800-48572800	Weak transcription	NHLF	lung
40	chr4:48553000-48566600	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr4:48554200-48573800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr4:48554600-48566400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr4:48555000-48578200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr4:48555200-48572600	Strong transcription	HSMM	muscle
45	chr4:48555200-48575400	Strong transcription	Adipose Nuclei	Adipose
46	chr4:48555400-48575400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr4:48556000-48581400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr4:48556600-48566400	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr4:48556600-48568000	Strong transcription	HUES6 Cell Line	embryonic stem cell
50	chr4:48556800-48578400	Strong transcription	HUES48 Cell Line	embryonic stem cell

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