Variant report

Variant	rs6879834
Chromosome Location	chr5:15576924-15576925
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10065073	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10085170	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10474717	0.83[CEU][hapmap];0.89[CHB][hapmap]
rs10475067	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12516651	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13185365	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4144522	0.92[CEU][hapmap];0.89[CHB][hapmap];0.87[CHD][hapmap];0.80[GIH][hapmap];0.87[JPT][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6861983	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6862606	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6889573	0.92[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];0.86[GIH][hapmap];0.87[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7732619	1.00[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9312891	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9312892	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9312896	0.96[AMR][1000 genomes];0.96[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	nsv516929	chr5:15087791-15870300	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1023068	chr5:15095221-15863583	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv869040	chr5:15097602-15866117	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv530222	chr5:15151662-15851485	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15555800-15584200	Weak transcription	HSMM	muscle
2	chr5:15567200-15580600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr5:15571000-15577200	Weak transcription	Right Ventricle	heart
4	chr5:15571400-15581000	Enhancers	Fetal Heart	heart
5	chr5:15571800-15578200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr5:15572000-15578000	Weak transcription	Psoas Muscle	Psoas
7	chr5:15572000-15583600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr5:15572000-15583800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr5:15572800-15583200	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr5:15573000-15583800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:15573200-15583600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr5:15573400-15577200	Weak transcription	Left Ventricle	heart
13	chr5:15573600-15579600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr5:15574000-15577000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:15574000-15594200	Weak transcription	Fetal Kidney	kidney
16	chr5:15575200-15579200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr5:15575400-15577200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr5:15575600-15577400	Weak transcription	Aorta	Aorta
19	chr5:15575600-15583600	Weak transcription	HSMMtube	muscle
20	chr5:15575800-15577200	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr5:15575800-15577200	Weak transcription	Osteobl	bone
22	chr5:15575800-15578000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr5:15575800-15578200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr5:15575800-15582800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr5:15576000-15577600	Enhancers	Brain Anterior Caudate	brain
26	chr5:15576000-15578000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr5:15576000-15578000	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr5:15576000-15578800	Weak transcription	Fetal Brain Male	brain
29	chr5:15576000-15582600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr5:15576000-15584200	Weak transcription	Adipose Nuclei	Adipose
31	chr5:15576000-15584800	Weak transcription	NHLF	lung
32	chr5:15576000-15585200	Weak transcription	NHDF-Ad	bronchial
33	chr5:15576200-15577400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr5:15576200-15578400	Enhancers	Fetal Lung	lung
35	chr5:15576200-15579200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr5:15576200-15580800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr5:15576200-15588000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr5:15576400-15578200	Enhancers	HUVEC	blood vessel
39	chr5:15576600-15577000	Weak transcription	Fetal Muscle Leg	muscle
40	chr5:15576600-15577000	Weak transcription	Ovary	ovary
41	chr5:15576600-15577200	Weak transcription	Fetal Muscle Trunk	muscle
42	chr5:15576600-15577400	Enhancers	Brain Substantia Nigra	brain
43	chr5:15576600-15577800	Weak transcription	Brain Hippocampus Middle	brain
44	chr5:15576600-15578000	Weak transcription	Brain Cingulate Gyrus	brain
45	chr5:15576600-15578600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr5:15576600-15579000	Weak transcription	Colon Smooth Muscle	Colon
47	chr5:15576800-15577200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr5:15576800-15577600	Enhancers	Brain Angular Gyrus	brain
49	chr5:15576800-15577600	Enhancers	Fetal Stomach	stomach

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