Variant report

Variant	rs6477598
Chromosome Location	chr9:110511675-110511676
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110503474..110505849-chr9:110510284..110512558,2	MCF-7	breast:
2	chr9:110511283..110513758-chr9:110751617..110753251,2	MCF-7	breast:
3	chr9:110246450..110254025-chr9:110510483..110522079,28	MCF-7	breast:
4	chr9:110264744..110266613-chr9:110510927..110513657,2	MCF-7	breast:
5	chr9:110248851..110253829-chr9:110506998..110514501,12	MCF-7	breast:
6	chr9:110506724..110509091-chr9:110510279..110512249,3	K562	blood:
7	chr9:110506724..110508935-chr9:110510279..110512239,2	K562	blood:

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10118459	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10733564	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1357574	0.81[CEU][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2177433	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4978559	0.82[AMR][1000 genomes]
rs7028227	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7044046	0.82[AMR][1000 genomes]
rs7860653	0.93[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs944174	0.98[ASN][1000 genomes]
rs944175	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][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	nsv427850	chr9:110456613-110632324	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv428221	chr9:110456613-110632324	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv520911	chr9:110504358-110517794	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv508561	chr9:110506336-110545367	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110504400-110512000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:110505200-110514200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:110507800-110513000	Weak transcription	GM12878-XiMat	blood
4	chr9:110509200-110511800	Enhancers	Monocytes-CD14+_RO01746	blood
5	chr9:110509200-110512400	Enhancers	Spleen	Spleen
6	chr9:110509400-110515600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr9:110509800-110511800	Weak transcription	HUVEC	blood vessel
8	chr9:110509800-110512000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:110509800-110512800	Enhancers	Ovary	ovary
10	chr9:110510000-110514200	Enhancers	Brain Germinal Matrix	brain
11	chr9:110510400-110512800	Enhancers	Right Ventricle	heart
12	chr9:110510400-110514600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr9:110510600-110514600	Enhancers	Adipose Nuclei	Adipose
14	chr9:110510600-110514600	Enhancers	Brain Hippocampus Middle	brain
15	chr9:110510600-110514600	Enhancers	Brain Substantia Nigra	brain
16	chr9:110510800-110511800	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr9:110510800-110512400	Enhancers	Lung	lung
18	chr9:110510800-110512400	Enhancers	Psoas Muscle	Psoas
19	chr9:110510800-110512600	Enhancers	Aorta	Aorta
20	chr9:110510800-110514000	Enhancers	Brain Inferior Temporal Lobe	brain
21	chr9:110510800-110514600	Enhancers	Placenta	Placenta
22	chr9:110510800-110514800	Enhancers	Fetal Muscle Leg	muscle
23	chr9:110510800-110515200	Enhancers	HMEC	breast
24	chr9:110511000-110512000	Weak transcription	Left Ventricle	heart
25	chr9:110511000-110513000	Enhancers	Brain Cingulate Gyrus	brain
26	chr9:110511000-110514400	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr9:110511200-110511800	Enhancers	Hela-S3	cervix
28	chr9:110511200-110512400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr9:110511200-110513600	Enhancers	Stomach Smooth Muscle	stomach
30	chr9:110511200-110514400	Enhancers	Brain Anterior Caudate	brain
31	chr9:110511200-110514400	Enhancers	Fetal Lung	lung
32	chr9:110511400-110511800	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr9:110511400-110512000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr9:110511400-110512400	Enhancers	Muscle Satellite Cultured Cells	--
35	chr9:110511400-110512600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr9:110511400-110513000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr9:110511400-110513200	Enhancers	Brain Angular Gyrus	brain
38	chr9:110511400-110513400	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr9:110511400-110513600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr9:110511400-110514400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr9:110511400-110514600	Enhancers	Fetal Brain Male	brain
42	chr9:110511400-110514800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr9:110511400-110514800	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr9:110511400-110514800	Enhancers	HSMM	muscle
45	chr9:110511400-110514800	Enhancers	NHLF	lung
46	chr9:110511600-110512000	Enhancers	A549	lung
47	chr9:110511600-110512000	Enhancers	Osteobl	bone
48	chr9:110511600-110512400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:110511600-110512400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr9:110511600-110513000	Enhancers	iPS-18 Cell Line	embryonic stem cell

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