Variant report

Variant	rs36068602
Chromosome Location	chr3:120140042-120140043
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:120139429..120140118-chr3:120277415..120278258,3	MCF-7	breast:
2	chr3:120139169..120141302-chr3:120275834..120278046,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12173	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12192	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13066496	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13070508	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13081675	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13081694	0.87[EUR][1000 genomes]
rs13083670	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13088020	0.83[EUR][1000 genomes]
rs13096232	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13096256	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13096973	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097755	0.87[EUR][1000 genomes]
rs13100865	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17813772	0.88[AMR][1000 genomes]
rs2091726	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2272515	0.90[EUR][1000 genomes]
rs33935225	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34446218	0.90[EUR][1000 genomes]
rs34805176	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs36001904	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3755558	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4676696	0.88[AMR][1000 genomes]
rs4676698	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4676768	0.90[AMR][1000 genomes]
rs4676776	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4676777	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4676781	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4676782	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4676783	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56100867	0.90[EUR][1000 genomes]
rs6775963	0.90[EUR][1000 genomes]
rs71327229	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1007557	chr3:119892894-120764353	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers 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	49 gene(s)	inside rSNPs	diseases
3	nsv536706	chr3:119892894-120764353	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv1012127	chr3:120015620-120272893	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv536707	chr3:120015620-120272893	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv1006428	chr3:120015620-120421982	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	esv3369381	chr3:120066425-120425510	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	esv3350409	chr3:120066445-120425480	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:120114400-120143200	Weak transcription	Small Intestine	intestine
2	chr3:120115800-120151000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:120135400-120151600	Genic enhancers	Osteobl	bone
4	chr3:120135600-120141600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:120136800-120140200	Weak transcription	Ovary	ovary
6	chr3:120136800-120140800	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr3:120136800-120140800	Enhancers	Brain Substantia Nigra	brain
8	chr3:120136800-120140800	Genic enhancers	HSMM	muscle
9	chr3:120136800-120141000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr3:120136800-120141200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr3:120136800-120141200	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr3:120136800-120141200	Enhancers	Brain Angular Gyrus	brain
13	chr3:120136800-120141200	Enhancers	Brain Hippocampus Middle	brain
14	chr3:120136800-120141200	Enhancers	Fetal Lung	lung
15	chr3:120136800-120141600	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr3:120136800-120141800	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr3:120136800-120141800	Enhancers	Fetal Heart	heart
18	chr3:120136800-120142200	Enhancers	Colon Smooth Muscle	Colon
19	chr3:120136800-120142600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:120136800-120145200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr3:120136800-120147400	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr3:120136800-120147600	Enhancers	Adipose Nuclei	Adipose
23	chr3:120136800-120148400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr3:120136800-120148600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:120137000-120140400	Weak transcription	Brain Germinal Matrix	brain
26	chr3:120137000-120140800	Enhancers	Brain Cingulate Gyrus	brain
27	chr3:120137000-120141200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:120137000-120149600	Enhancers	Rectal Smooth Muscle	rectum
29	chr3:120137400-120141400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr3:120137400-120162200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:120137600-120140200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr3:120137600-120142000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr3:120137800-120142600	Genic enhancers	Fetal Muscle Leg	muscle
34	chr3:120137800-120161600	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:120138000-120140200	Weak transcription	Spleen	Spleen
36	chr3:120138000-120140600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr3:120138000-120140600	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr3:120138200-120140200	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr3:120138200-120140200	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr3:120138200-120140200	Weak transcription	Duodenum Mucosa	Duodenum
41	chr3:120138200-120140200	Weak transcription	Fetal Intestine Small	intestine
42	chr3:120138200-120140200	Weak transcription	Pancreas	Pancrea
43	chr3:120138200-120140400	Weak transcription	Colonic Mucosa	Colon
44	chr3:120138200-120141200	Genic enhancers	NH-A	brain
45	chr3:120138200-120142000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:120138200-120142000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr3:120138200-120142000	Weak transcription	Lung	lung
48	chr3:120138200-120142200	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr3:120138200-120145400	Weak transcription	NHEK	skin
50	chr3:120138200-120146400	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links