Variant report

Variant	rs3772888
Chromosome Location	chr3:81792730-81792731
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	chr3:81789146..81795604-chr3:81809193..81811958,7	MCF-7	breast:
2	chr3:81789819..81797196-chr3:81807650..81813820,9	K562	blood:

Variant related genes	Relation type
ENSG00000114480	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12054089	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12629752	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes]
rs12638507	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17019195	0.92[YRI][hapmap]
rs17019216	0.92[YRI][hapmap]
rs17019219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17019297	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs3772885	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs3772897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3772899	0.86[CHB][hapmap]
rs3772902	0.86[CHB][hapmap]
rs3772904	0.91[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60509885	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6767507	0.81[AFR][1000 genomes]
rs6771364	0.81[AFR][1000 genomes]
rs7645838	0.91[YRI][hapmap];0.81[AFR][1000 genomes]
rs998206	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012133	chr3:81499082-81817471	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv949545	chr3:81523898-81893929	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1009607	chr3:81651419-81825151	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv536604	chr3:81651419-81825151	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv834749	chr3:81655377-81818880	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv999992	chr3:81693662-82015969	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv536605	chr3:81693662-82015969	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81776000-81807400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:81781000-81809400	Weak transcription	Primary B cells from peripheral blood	blood
3	chr3:81782200-81800400	Weak transcription	Primary B cells from cord blood	blood
4	chr3:81782400-81800200	Weak transcription	Left Ventricle	heart
5	chr3:81782800-81796600	Weak transcription	Right Atrium	heart
6	chr3:81784800-81792800	Weak transcription	HepG2	liver
7	chr3:81785200-81793000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:81785600-81793000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:81789200-81794400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:81789600-81793600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr3:81789600-81794400	Enhancers	Fetal Heart	heart
12	chr3:81789600-81794600	Enhancers	Hela-S3	cervix
13	chr3:81789600-81794800	Enhancers	Adipose Nuclei	Adipose
14	chr3:81790000-81793400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr3:81790600-81793200	Enhancers	Colon Smooth Muscle	Colon
16	chr3:81790800-81792800	Active TSS	Skeletal Muscle Male	skeletal muscle
17	chr3:81791000-81793400	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr3:81791200-81793800	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr3:81791200-81794800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr3:81791200-81794800	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr3:81791200-81794800	Enhancers	Liver	Liver
22	chr3:81791200-81808800	Weak transcription	Primary T cells from cord blood	blood
23	chr3:81791400-81795400	Weak transcription	Right Ventricle	heart
24	chr3:81791400-81796400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:81791600-81792800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:81791600-81793200	Enhancers	Rectal Smooth Muscle	rectum
27	chr3:81791600-81793400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:81791600-81794400	Enhancers	K562	blood
29	chr3:81791600-81803400	Weak transcription	Brain Hippocampus Middle	brain
30	chr3:81791800-81792800	Flanking Active TSS	HUVEC	blood vessel
31	chr3:81791800-81793000	Enhancers	Placenta Amnion	Placenta Amnion
32	chr3:81791800-81793400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr3:81791800-81794000	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr3:81791800-81794000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr3:81791800-81794600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr3:81792000-81793000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:81792000-81794000	Enhancers	Stomach Mucosa	stomach
38	chr3:81792000-81795000	Enhancers	HSMM	muscle
39	chr3:81792000-81795400	Weak transcription	Psoas Muscle	Psoas
40	chr3:81792000-81810200	Weak transcription	Spleen	Spleen
41	chr3:81792200-81792800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:81792200-81792800	Weak transcription	Aorta	Aorta
43	chr3:81792200-81792800	Enhancers	Fetal Lung	lung
44	chr3:81792200-81792800	Active TSS	NHDF-Ad	bronchial
45	chr3:81792200-81793000	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr3:81792200-81793000	Enhancers	Brain Substantia Nigra	brain
47	chr3:81792200-81793800	Enhancers	Primary monocytes fromperipheralblood	blood
48	chr3:81792200-81793800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr3:81792200-81794000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr3:81792200-81794200	Enhancers	Monocytes-CD14+_RO01746	blood

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