Variant report

Variant	rs56355928
Chromosome Location	chr3:119010721-119010722
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119009764..119012007-chr3:119036606..119039583,2	MCF-7	breast:
2	chr3:119008281..119010975-chr3:119011363..119014230,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000031081	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10511385	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918661	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12637189	0.85[EUR][1000 genomes]
rs12639418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16829649	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55642684	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56007616	0.94[EUR][1000 genomes]
rs56054255	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56176656	0.85[EUR][1000 genomes]
rs56397530	1.00[ASN][1000 genomes]
rs7646428	0.93[ASN][1000 genomes]
rs9813454	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828041	0.82[AFR][1000 genomes]
rs9828634	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9839704	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9856953	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9884021	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119007800-119012400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:119008600-119011000	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr3:119008600-119011000	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr3:119008600-119011800	Weak transcription	Placenta	Placenta
5	chr3:119008800-119011000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr3:119008800-119011000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr3:119008800-119011200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr3:119008800-119011200	Weak transcription	GM12878-XiMat	blood
9	chr3:119008800-119011400	Weak transcription	Primary B cells from peripheral blood	blood
10	chr3:119008800-119011400	Weak transcription	Adipose Nuclei	Adipose
11	chr3:119008800-119011600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:119008800-119012000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:119008800-119012600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:119008800-119012600	Weak transcription	Esophagus	oesophagus
15	chr3:119008800-119012800	Weak transcription	Spleen	Spleen
16	chr3:119009000-119011000	Weak transcription	Primary T cells from cord blood	blood
17	chr3:119009000-119011000	Weak transcription	Fetal Thymus	thymus
18	chr3:119009000-119011400	Weak transcription	Lung	lung
19	chr3:119009000-119011800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr3:119009000-119012000	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr3:119009200-119011400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr3:119009200-119011400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:119009400-119011600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:119009400-119011600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr3:119009800-119011000	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:119009800-119011200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:119010200-119012200	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr3:119010400-119011400	Weak transcription	Right Ventricle	heart
29	chr3:119010400-119012400	Weak transcription	Fetal Intestine Large	intestine
30	chr3:119010600-119011000	Weak transcription	Fetal Heart	heart

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