Variant report

Variant	rs4277989
Chromosome Location	chr6:163744748-163744749
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:163743943..163749523-chr6:163832972..163838830,12	MCF-7	breast:
2	chr6:163742095..163749894-chr6:163832230..163837162,13	MCF-7	breast:
3	chr6:163743568..163746151-chr6:163758711..163760918,2	K562	blood:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AL078585.1-11	chr6:163744423-163745101	NONHSAT115954
2	lnc-AL078585.1-11	chr6:163744423-163745101	NONHSAT115955
3	lnc-AL078585.1-11	chr6:163744423-163744897	NONHSAT115956

No data

Variant related genes	Relation type
ENSG00000270419	Chromatin interaction
ENSG00000112531	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs4555894	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6927207	0.95[EUR][1000 genomes]
rs723985	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9306	0.82[EUR][1000 genomes]
rs9347737	0.86[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	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

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163732000-163749600	Weak transcription	Spleen	Spleen
2	chr6:163736200-163745800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:163737200-163744800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:163740000-163745600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:163740200-163746000	Weak transcription	Psoas Muscle	Psoas
6	chr6:163740200-163746200	Weak transcription	Lung	lung
7	chr6:163741400-163746600	Enhancers	Adipose Nuclei	Adipose
8	chr6:163741800-163745400	Weak transcription	Colon Smooth Muscle	Colon
9	chr6:163742400-163744800	Enhancers	Pancreas	Pancrea
10	chr6:163742800-163746200	Weak transcription	Ovary	ovary
11	chr6:163743200-163744800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:163743400-163748600	Weak transcription	Left Ventricle	heart
13	chr6:163743400-163749600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:163743600-163745600	Weak transcription	Fetal Heart	heart
15	chr6:163744200-163745400	Weak transcription	Liver	Liver
16	chr6:163744200-163751000	Weak transcription	Right Atrium	heart
17	chr6:163744400-163745000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:163744400-163745000	Flanking Active TSS	Brain Substantia Nigra	brain
19	chr6:163744400-163745000	Enhancers	Right Ventricle	heart
20	chr6:163744400-163745200	Flanking Active TSS	Brain Hippocampus Middle	brain
21	chr6:163744400-163745200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
22	chr6:163744400-163745400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:163744400-163745400	Enhancers	A549	lung
24	chr6:163744400-163746000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:163744400-163746600	Enhancers	Fetal Muscle Leg	muscle
26	chr6:163744400-163746600	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr6:163744400-163747200	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr6:163744400-163747400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:163744400-163747600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:163744400-163747600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:163744600-163744800	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr6:163744600-163745000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:163744600-163745000	Enhancers	Brain Angular Gyrus	brain
34	chr6:163744600-163745000	Flanking Active TSS	Brain Anterior Caudate	brain
35	chr6:163744600-163745000	Flanking Active TSS	Brain Cingulate Gyrus	brain
36	chr6:163744600-163745000	Enhancers	Fetal Muscle Trunk	muscle
37	chr6:163744600-163745800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:163744600-163746600	Enhancers	Placenta	Placenta
39	chr6:163744600-163746800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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