Variant report

Variant	rs16896146
Chromosome Location	chr6:164529752-164529753
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AL078585.1-7	chr6:164529652-164529793	XLOC_005913

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11754236	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17452186	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs17549355	0.93[CEU][hapmap];0.96[EUR][1000 genomes]
rs206701	1.00[JPT][hapmap]
rs9456928	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9456929	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9456930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458987	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][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	nsv1018860	chr6:163939347-164532579	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538526	chr6:163939347-164532579	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1026707	chr6:164188210-164749206	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv538527	chr6:164188210-164749206	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1029952	chr6:164463355-165268911	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	esv1828570	chr6:164528407-164546547	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:164506400-164530200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:164523200-164530600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:164523400-164536400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:164524800-164531800	Enhancers	Fetal Muscle Leg	muscle
5	chr6:164527200-164530400	Enhancers	Fetal Muscle Trunk	muscle
6	chr6:164527200-164531600	Enhancers	Fetal Heart	heart
7	chr6:164528000-164529800	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:164528000-164537200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:164528400-164530200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:164528800-164529800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:164528800-164529800	Enhancers	Muscle Satellite Cultured Cells	--
12	chr6:164528800-164531000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:164529000-164530000	Enhancers	Left Ventricle	heart
14	chr6:164529000-164530200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:164529000-164530200	Enhancers	NH-A	brain
16	chr6:164529000-164531000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
17	chr6:164529200-164530200	Flanking Active TSS	HSMMtube	muscle
18	chr6:164529200-164530600	Enhancers	Spleen	Spleen
19	chr6:164529200-164531200	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr6:164529200-164531200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
21	chr6:164529400-164529800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:164529400-164529800	Enhancers	Right Atrium	heart
23	chr6:164529400-164530200	Enhancers	Brain Anterior Caudate	brain
24	chr6:164529400-164531000	Weak transcription	Brain Substantia Nigra	brain
25	chr6:164529400-164531000	Flanking Active TSS	HSMM	muscle
26	chr6:164529600-164530000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:164529600-164530000	Flanking Active TSS	Psoas Muscle	Psoas
28	chr6:164529600-164530000	Weak transcription	K562	blood
29	chr6:164529600-164530200	Active TSS	Rectal Mucosa Donor 29	rectum
30	chr6:164529600-164530600	Enhancers	Esophagus	oesophagus
31	chr6:164529600-164530800	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr6:164529600-164530800	Flanking Active TSS	Liver	Liver
33	chr6:164529600-164530800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr6:164529600-164531000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:164529600-164531000	Flanking Active TSS	Adipose Nuclei	Adipose
36	chr6:164529600-164531000	Active TSS	Right Ventricle	heart
37	chr6:164529600-164531600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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