Variant report

Variant	rs6841654
Chromosome Location	chr4:79570878-79570879
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10001246	0.91[CEU][hapmap]
rs10007186	0.82[CEU][hapmap]
rs1108907	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11724268	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs11733032	0.95[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11733269	0.90[CEU][hapmap]
rs11736376	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11736602	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11942573	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12233694	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12233707	0.80[AMR][1000 genomes]
rs12711032	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13120630	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs13122868	0.85[JPT][hapmap]
rs13138005	1.00[CEU][hapmap]
rs4306980	1.00[CEU][hapmap]
rs4353930	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6533821	0.90[CEU][hapmap]
rs6533825	1.00[CEU][hapmap]
rs6533835	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6533842	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6533845	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6533847	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6811782	0.85[JPT][hapmap]
rs6812441	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs6815344	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6834587	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs6835210	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs6838443	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6840592	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs6845893	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6854055	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6858740	0.85[JPT][hapmap]
rs7317	1.00[CEU][hapmap]
rs7657082	1.00[CEU][hapmap]
rs7680766	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7682984	0.82[AMR][1000 genomes]
rs9998136	0.94[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 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	chr4:79551400-79578200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:79564400-79571400	Weak transcription	Fetal Heart	heart
3	chr4:79564400-79577200	Weak transcription	Fetal Thymus	thymus
4	chr4:79564400-79589600	Weak transcription	Lung	lung
5	chr4:79566000-79573200	Enhancers	Placenta Amnion	Placenta Amnion
6	chr4:79567200-79571200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr4:79567600-79573600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr4:79567800-79571000	Weak transcription	HSMMtube	muscle
9	chr4:79567800-79573600	Weak transcription	Brain Angular Gyrus	brain
10	chr4:79567800-79574000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr4:79567800-79578200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr4:79567800-79580400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr4:79567800-79583400	Weak transcription	Psoas Muscle	Psoas
14	chr4:79568000-79571000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr4:79568000-79571000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr4:79568000-79571000	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr4:79568000-79571000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr4:79568000-79571000	Weak transcription	Fetal Intestine Large	intestine
19	chr4:79568000-79571000	Weak transcription	Placenta	Placenta
20	chr4:79568000-79571000	Weak transcription	HSMM	muscle
21	chr4:79568000-79571000	Weak transcription	Osteobl	bone
22	chr4:79568000-79571400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr4:79568000-79571400	Enhancers	K562	blood
24	chr4:79568000-79571600	Weak transcription	Spleen	Spleen
25	chr4:79568000-79572800	Weak transcription	Fetal Lung	lung
26	chr4:79568000-79573600	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr4:79568000-79573600	Weak transcription	Left Ventricle	heart
28	chr4:79568000-79573600	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr4:79568000-79573800	Weak transcription	Brain Substantia Nigra	brain
30	chr4:79568000-79575600	Weak transcription	Fetal Muscle Leg	muscle
31	chr4:79568000-79578000	Enhancers	HUVEC	blood vessel
32	chr4:79568000-79582800	Weak transcription	Right Atrium	heart
33	chr4:79568200-79571000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr4:79568200-79571000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr4:79568200-79571000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr4:79568200-79571000	Weak transcription	NH-A	brain
37	chr4:79568200-79571400	Weak transcription	Adipose Nuclei	Adipose
38	chr4:79568200-79571800	Weak transcription	Brain Hippocampus Middle	brain
39	chr4:79568200-79573400	Weak transcription	Fetal Stomach	stomach
40	chr4:79568800-79571000	Enhancers	Primary neutrophils fromperipheralblood	blood
41	chr4:79569000-79573000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr4:79569200-79572200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr4:79569200-79572600	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr4:79569400-79571000	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr4:79569400-79572800	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr4:79569600-79571800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr4:79569600-79575400	Enhancers	NHDF-Ad	bronchial
48	chr4:79570000-79571600	Enhancers	NHEK	skin
49	chr4:79570000-79573000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr4:79570200-79571200	Weak transcription	Primary B cells from cord blood	blood

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