Variant report

Variant	rs12106781
Chromosome Location	chr3:151042206-151042207
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:151021234..151025100-chr3:151041293..151045950,7	MCF-7	breast:
2	chr3:151037228..151038869-chr3:151040809..151042718,2	MCF-7	breast:
3	chr3:151032337..151036170-chr3:151042057..151045470,4	MCF-7	breast:
4	chr3:151039875..151042217-chr3:151061873..151064664,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138271	Chromatin interaction
ENSG00000144893	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1388626	0.83[YRI][hapmap]
rs1463726	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846673	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16863276	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs16863277	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs16863279	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs16863300	1.00[MKK][hapmap]
rs16863307	1.00[AMR][1000 genomes]
rs16863317	0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs16863318	0.90[LWK][hapmap];0.94[YRI][hapmap];0.80[AFR][1000 genomes]
rs16863319	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16863320	0.83[AFR][1000 genomes]
rs16863329	0.90[LWK][hapmap];0.94[YRI][hapmap]
rs16863330	0.94[YRI][hapmap]
rs16863331	0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs16863403	1.00[MEX][hapmap]
rs2046934	0.83[YRI][hapmap]
rs3821667	0.83[YRI][hapmap]
rs56255408	0.82[AFR][1000 genomes]
rs56654214	1.00[AMR][1000 genomes]
rs56957964	0.94[AFR][1000 genomes]
rs58724507	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59501054	1.00[AMR][1000 genomes]
rs60116140	0.94[AFR][1000 genomes]
rs60196145	0.80[AFR][1000 genomes]
rs60449267	1.00[AMR][1000 genomes]
rs61097635	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61514162	0.84[AFR][1000 genomes]
rs73006514	1.00[AMR][1000 genomes]
rs73006560	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006586	0.94[AFR][1000 genomes]
rs73006587	0.94[AFR][1000 genomes]
rs73006595	0.84[AFR][1000 genomes]
rs73008503	0.94[AFR][1000 genomes]
rs73008504	0.90[AFR][1000 genomes]
rs73008505	0.80[AFR][1000 genomes]
rs73021193	1.00[AMR][1000 genomes]
rs73021198	1.00[AMR][1000 genomes]
rs73023004	1.00[AMR][1000 genomes]
rs73023014	1.00[AMR][1000 genomes]
rs73023047	1.00[AMR][1000 genomes]
rs73023066	1.00[AMR][1000 genomes]
rs73869016	0.80[AFR][1000 genomes]
rs73869165	1.00[AMR][1000 genomes]
rs7632688	1.00[AMR][1000 genomes]
rs7632738	0.94[YRI][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151002600-151044000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:151036000-151044600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:151036200-151043000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:151036600-151045200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:151037200-151044000	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr3:151038800-151046400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr3:151039000-151045200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:151039000-151045200	Weak transcription	NHEK	skin
9	chr3:151039000-151045200	Weak transcription	NHLF	lung
10	chr3:151039200-151045200	Weak transcription	Hela-S3	cervix
11	chr3:151039600-151043600	Weak transcription	Adipose Nuclei	Adipose
12	chr3:151039800-151045200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr3:151040200-151043400	Weak transcription	Primary B cells from cord blood	blood
14	chr3:151040400-151042600	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr3:151041200-151042600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:151041600-151042400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:151041800-151042400	Enhancers	HMEC	breast
18	chr3:151041800-151042400	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr3:151041800-151045000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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