Variant report

Variant	rs3792557
Chromosome Location	chr3:46903043-46903044
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46898224..46901202-chr3:46902129..46904254,2	K562	blood:
2	chr3:46902101..46904176-chr3:46943640..46945908,3	K562	blood:

Variant related genes	Relation type
ENSG00000160801	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1077216	0.83[ASN][1000 genomes]
rs2242118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3729704	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3792559	1.00[CEU][hapmap];0.95[GIH][hapmap];0.83[EUR][1000 genomes]
rs56387622	0.85[ASN][1000 genomes]
rs61351097	0.86[ASN][1000 genomes]
rs66668401	0.90[ASN][1000 genomes]
rs67529903	0.85[ASN][1000 genomes]
rs6768627	0.90[ASN][1000 genomes]
rs6768845	0.90[ASN][1000 genomes]
rs6778660	0.90[ASN][1000 genomes]
rs6781266	0.90[ASN][1000 genomes]
rs6786689	0.83[ASN][1000 genomes]
rs6787229	0.85[ASN][1000 genomes]
rs6796502	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs72895203	0.90[ASN][1000 genomes]
rs73065135	0.85[ASN][1000 genomes]
rs73065147	0.90[ASN][1000 genomes]
rs7633581	0.83[CEU][hapmap];0.97[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	esv2757869	chr3:46680452-46972489	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	esv2759147	chr3:46680452-46972489	Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv536558	chr3:46706571-47024756	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv915922	chr3:46768104-47009805	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv590205	chr3:46852679-46929546	Weak transcription Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv1003979	chr3:46853374-46943854	Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv590206	chr3:46873957-46935527	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv876752	chr3:46879831-46967040	Bivalent/Poised TSS Genic enhancers Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv876753	chr3:46884552-46957298	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
12	nsv876754	chr3:46884552-46967040	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
13	nsv876755	chr3:46895109-47061183	Genic enhancers Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46888000-46908800	Weak transcription	Esophagus	oesophagus
2	chr3:46893800-46906200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:46894200-46905200	Weak transcription	Fetal Lung	lung
4	chr3:46895000-46904400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr3:46897000-46908600	Weak transcription	Gastric	stomach
6	chr3:46898000-46904800	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
7	chr3:46898800-46908400	Weak transcription	Liver	Liver
8	chr3:46899600-46903200	Transcr. at gene 5' and 3'	Right Ventricle	heart
9	chr3:46900600-46904800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:46901000-46909000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:46901200-46904200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:46902000-46904400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:46902200-46903400	Enhancers	Lung	lung
14	chr3:46902200-46908400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:46902600-46903200	Active TSS	Right Atrium	heart
16	chr3:46902600-46903600	Enhancers	Pancreas	Pancrea
17	chr3:46902600-46903600	Enhancers	Psoas Muscle	Psoas
18	chr3:46902600-46903800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr3:46902600-46904000	Enhancers	Spleen	Spleen
20	chr3:46902800-46903200	Flanking Active TSS	Fetal Heart	heart
21	chr3:46902800-46903200	Flanking Active TSS	Fetal Muscle Leg	muscle
22	chr3:46902800-46903400	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr3:46902800-46903800	Enhancers	Ovary	ovary
24	chr3:46902800-46904200	Enhancers	HepG2	liver
25	chr3:46902800-46904600	Enhancers	Adipose Nuclei	Adipose
26	chr3:46902800-46904800	Flanking Active TSS	Fetal Muscle Trunk	muscle
27	chr3:46902800-46907000	Enhancers	Fetal Intestine Large	intestine
28	chr3:46903000-46903400	Enhancers	K562	blood
29	chr3:46903000-46904000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
30	chr3:46903000-46906000	Active TSS	Left Ventricle	heart
31	chr3:46903000-46907200	Enhancers	Fetal Intestine Small	intestine

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