Variant report

Variant	rs9456858
Chromosome Location	chr6:163755870-163755871
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:163745590..163748829-chr6:163752310..163756417,4	MCF-7	breast:
2	chr6:163755571..163762023-chr6:163831891..163837157,6	MCF-7	breast:
3	chr6:163751446..163754906-chr6:163755143..163760328,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AL078585.1-12	chr6:163755670-163755925	predAs_ge08_QKI_1

Variant related genes	Relation type
ENSG00000270419	Chromatin interaction
ENSG00000112531	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12526757	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295220	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9456854	0.95[ASN][1000 genomes]
rs9456855	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9456856	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9456857	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458793	0.95[ASN][1000 genomes]
rs9458798	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9458802	1.00[ASN][1000 genomes]
rs9458803	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9458805	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458806	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458807	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9458811	0.85[ASN][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	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1022610	chr6:163591786-163814041	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv605188	chr6:163697439-163772096	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv534621	chr6:163731741-163950870	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	esv1803546	chr6:163749552-163757127	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163745200-163767000	Enhancers	Brain Inferior Temporal Lobe	brain
2	chr6:163745600-163773600	Enhancers	Brain Substantia Nigra	brain
3	chr6:163746600-163759400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:163746600-163759800	Enhancers	Brain Anterior Caudate	brain
5	chr6:163746600-163759800	Enhancers	Brain Hippocampus Middle	brain
6	chr6:163746600-163764400	Enhancers	Brain Cingulate Gyrus	brain
7	chr6:163748600-163756600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:163751600-163756600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:163751600-163756800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr6:163751600-163759200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:163751600-163759400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:163752400-163756200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:163752600-163758200	Enhancers	Adipose Nuclei	Adipose
14	chr6:163752800-163756000	Weak transcription	Colon Smooth Muscle	Colon
15	chr6:163753400-163756400	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr6:163753600-163759000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:163754200-163757400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:163754200-163760000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr6:163754400-163756200	Enhancers	Fetal Kidney	kidney
20	chr6:163754400-163758200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr6:163754400-163760400	Enhancers	Fetal Muscle Trunk	muscle
22	chr6:163754600-163760200	Enhancers	Left Ventricle	heart
23	chr6:163754600-163760800	Enhancers	Fetal Muscle Leg	muscle
24	chr6:163754800-163757200	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr6:163755000-163756800	Enhancers	NHDF-Ad	bronchial
26	chr6:163755000-163757600	Enhancers	Fetal Lung	lung
27	chr6:163755000-163757800	Enhancers	Placenta	Placenta
28	chr6:163755000-163758400	Enhancers	Right Ventricle	heart
29	chr6:163755000-163760200	Enhancers	Lung	lung
30	chr6:163755200-163756800	Enhancers	Osteobl	bone
31	chr6:163755200-163757200	Enhancers	Fetal Heart	heart
32	chr6:163755200-163758000	Enhancers	Spleen	Spleen
33	chr6:163755200-163758200	Enhancers	Right Atrium	heart
34	chr6:163755200-163758400	Enhancers	Psoas Muscle	Psoas
35	chr6:163755400-163759800	Enhancers	Brain Angular Gyrus	brain
36	chr6:163755600-163756000	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:163755600-163756200	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr6:163755800-163756000	Bivalent Enhancer	HepG2	liver
39	chr6:163755800-163758000	Enhancers	HUVEC	blood vessel
40	chr6:163755800-163759400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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