Variant report

Variant	rs6559755
Chromosome Location	chr9:86621132-86621133
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:86569088..86572971-chr9:86618139..86621506,3	K562	blood:
2	chr9:86621080..86624737-chr9:86626977..86631058,3	MCF-7	breast:
3	chr9:86594505..86596949-chr9:86620921..86622582,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178966	Chromatin interaction
ENSG00000165118	Chromatin interaction
ENSG00000165119	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs57364890	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57371575	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57996505	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58090060	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59038995	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59227663	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59962995	1.00[AMR][1000 genomes]
rs60035746	1.00[AMR][1000 genomes]
rs60639174	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60889426	1.00[AMR][1000 genomes]
rs61372781	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61708723	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6559759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7035469	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7038536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469353	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469354	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469361	1.00[AMR][1000 genomes]
rs73469367	1.00[AMR][1000 genomes]
rs73469373	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469375	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469382	1.00[AMR][1000 genomes]
rs73469388	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471355	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471356	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471359	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471374	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471377	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471381	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471387	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471388	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471390	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473369	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473371	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7856484	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7872631	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7875551	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831644	chr9:86534310-86704395	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv893514	chr9:86584160-86678917	Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	esv3328820	chr9:86613612-86634313	Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86596400-86632400	Weak transcription	Spleen	Spleen
2	chr9:86596800-86621400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr9:86596800-86621600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:86597000-86621200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:86597000-86621600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:86597400-86628800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr9:86598800-86622400	Weak transcription	Brain Germinal Matrix	brain
8	chr9:86602000-86623200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:86602400-86627200	Weak transcription	Left Ventricle	heart
10	chr9:86603800-86621200	Weak transcription	Hela-S3	cervix
11	chr9:86604000-86622600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr9:86604000-86626200	Weak transcription	Pancreas	Pancrea
13	chr9:86604200-86621400	Weak transcription	Thymus	Thymus
14	chr9:86604200-86623400	Weak transcription	Fetal Stomach	stomach
15	chr9:86605000-86622400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:86605400-86622200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr9:86606000-86624200	Weak transcription	Fetal Muscle Leg	muscle
18	chr9:86607800-86622600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr9:86607800-86622800	Weak transcription	K562	blood
20	chr9:86611000-86623000	Weak transcription	Psoas Muscle	Psoas
21	chr9:86613200-86621200	Weak transcription	Adipose Nuclei	Adipose
22	chr9:86615600-86621400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr9:86616800-86621200	Weak transcription	Primary B cells from peripheral blood	blood
24	chr9:86616800-86621400	Weak transcription	HepG2	liver
25	chr9:86616800-86621600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr9:86616800-86621800	Weak transcription	Fetal Muscle Trunk	muscle
27	chr9:86616800-86623800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr9:86617000-86621600	Weak transcription	Fetal Lung	lung
29	chr9:86617000-86621600	Weak transcription	Fetal Thymus	thymus
30	chr9:86617000-86622200	Weak transcription	Fetal Brain Female	brain
31	chr9:86617000-86622600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr9:86617000-86622800	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr9:86617000-86622800	Weak transcription	Fetal Kidney	kidney
34	chr9:86617400-86621600	Weak transcription	Primary B cells from cord blood	blood
35	chr9:86617600-86621200	Weak transcription	Stomach Mucosa	stomach
36	chr9:86617600-86621200	Weak transcription	HSMM	muscle
37	chr9:86617600-86621600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr9:86617600-86621600	Weak transcription	HUVEC	blood vessel
39	chr9:86617600-86624400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr9:86617600-86624800	Weak transcription	Primary hematopoietic stem cells	blood
41	chr9:86617600-86625000	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr9:86617800-86621200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr9:86617800-86623600	Weak transcription	A549	lung
44	chr9:86617800-86625800	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr9:86618200-86621400	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr9:86618200-86625400	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr9:86618400-86621600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:86618400-86625400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr9:86618800-86624400	Weak transcription	Aorta	Aorta
50	chr9:86619800-86624400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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