Variant report

Variant	rs61461024
Chromosome Location	chr3:158448154-158448155
allele	-/CCCTTCCT
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1548013	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3755746	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4680461	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4680463	0.84[ASN][1000 genomes]
rs4680466	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs73158358	0.90[ASN][1000 genomes]
rs7429899	0.89[ASN][1000 genomes]
rs7617706	0.90[ASN][1000 genomes]
rs7620380	0.94[ASN][1000 genomes]
rs9290028	0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9810241	0.90[ASN][1000 genomes]
rs9811858	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9825140	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9849301	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9857480	0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs9861289	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv1004124	chr3:158146715-158808638	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv530059	chr3:158332590-159147549	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv1014255	chr3:158358860-158768542	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv532665	chr3:158370013-158754245	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv948755	chr3:158388780-158672287	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv877692	chr3:158430706-158828643	Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv1001450	chr3:158440011-158768399	Weak transcription Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv536777	chr3:158440011-158768399	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	esv3345879	chr3:158448141-158448195	Weak transcription Enhancers Genic enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158429600-158449000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:158431000-158449200	Weak transcription	Brain Germinal Matrix	brain
3	chr3:158432200-158449200	Weak transcription	Pancreas	Pancrea
4	chr3:158435000-158449200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:158439200-158449200	Weak transcription	Fetal Brain Female	brain
6	chr3:158441000-158449200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:158441000-158449200	Weak transcription	Esophagus	oesophagus
8	chr3:158441400-158449000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr3:158442200-158449000	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr3:158443200-158449400	Weak transcription	Psoas Muscle	Psoas
11	chr3:158443200-158449400	Weak transcription	Spleen	Spleen
12	chr3:158443800-158449200	Weak transcription	Left Ventricle	heart
13	chr3:158443800-158449600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:158444000-158449400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:158444200-158449200	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr3:158444400-158449400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:158445400-158449600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:158445600-158448600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr3:158445600-158449200	Weak transcription	Lung	lung
20	chr3:158445600-158449200	Weak transcription	HSMMtube	muscle
21	chr3:158445600-158449400	Weak transcription	Gastric	stomach
22	chr3:158445600-158449400	Weak transcription	Right Atrium	heart
23	chr3:158445800-158449400	Weak transcription	HSMM	muscle
24	chr3:158446000-158449000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:158446000-158449000	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr3:158446000-158449000	Weak transcription	Stomach Smooth Muscle	stomach
27	chr3:158446000-158449000	Weak transcription	GM12878-XiMat	blood
28	chr3:158446000-158449000	Weak transcription	NH-A	brain
29	chr3:158446000-158449000	Weak transcription	NHEK	skin
30	chr3:158446000-158449200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:158446000-158449400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr3:158446200-158448800	Weak transcription	Fetal Stomach	stomach
33	chr3:158446200-158448800	Weak transcription	Hela-S3	cervix
34	chr3:158446200-158449000	Weak transcription	Primary B cells from peripheral blood	blood
35	chr3:158446200-158449000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr3:158446200-158449000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr3:158446200-158449000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr3:158446200-158449000	Weak transcription	Adipose Nuclei	Adipose
39	chr3:158446200-158449000	Weak transcription	Brain Cingulate Gyrus	brain
40	chr3:158446200-158449000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr3:158446200-158449000	Weak transcription	Brain Substantia Nigra	brain
42	chr3:158446200-158449000	Weak transcription	Colonic Mucosa	Colon
43	chr3:158446200-158449000	Weak transcription	Colon Smooth Muscle	Colon
44	chr3:158446200-158449000	Weak transcription	Duodenum Mucosa	Duodenum
45	chr3:158446200-158449000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr3:158446200-158449000	Weak transcription	Placenta	Placenta
47	chr3:158446200-158449000	Weak transcription	Ovary	ovary
48	chr3:158446200-158449000	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr3:158446200-158449000	Weak transcription	Stomach Mucosa	stomach
50	chr3:158446200-158449200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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