Variant report

Variant	rs7672965
Chromosome Location	chr4:143381652-143381653
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143360196..143364725-chr4:143377583..143382490,5	MCF-7	breast:
2	chr4:143377586..143379612-chr4:143380437..143382675,2	MCF-7	breast:
3	chr4:143380779..143382663-chr4:143383129..143385303,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10008498	0.92[EUR][1000 genomes]
rs10011782	0.92[CEU][hapmap];0.85[TSI][hapmap]
rs10012476	0.86[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs10015184	0.92[ASN][1000 genomes]
rs1013397	0.87[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs12642500	0.80[ASN][1000 genomes]
rs12643136	0.95[JPT][hapmap]
rs12644565	0.92[ASN][1000 genomes]
rs12646243	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs12649139	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1364917	0.91[JPT][hapmap]
rs1364926	0.82[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1391099	1.00[CEU][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs1425531	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs1425533	0.92[CEU][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap]
rs1425534	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1425535	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1425536	0.92[CEU][hapmap];0.84[JPT][hapmap]
rs1425537	0.92[CEU][hapmap]
rs1425538	0.87[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1489581	1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs17016163	1.00[CEU][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs17016170	0.91[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs17016175	1.00[CEU][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs17016207	0.82[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs17016248	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs17016304	0.91[JPT][hapmap]
rs17016306	0.92[CEU][hapmap];0.86[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap]
rs1817970	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs2042644	0.84[ASN][1000 genomes]
rs2113997	0.92[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2162108	0.80[ASN][1000 genomes]
rs2322705	0.80[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2322706	0.92[ASN][1000 genomes]
rs2322795	0.92[CEU][hapmap]
rs28510314	0.84[ASN][1000 genomes]
rs28823374	0.92[ASN][1000 genomes]
rs28850298	0.87[ASN][1000 genomes]
rs28861843	0.90[ASN][1000 genomes]
rs34900920	0.88[ASN][1000 genomes]
rs3863128	0.93[EUR][1000 genomes]
rs3913163	1.00[CEU][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes]
rs4345256	0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs4956444	0.91[EUR][1000 genomes]
rs57724540	0.81[ASN][1000 genomes]
rs7668133	0.82[CHD][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs7699408	0.84[ASN][1000 genomes]
rs9308151	0.90[EUR][1000 genomes]
rs9308152	0.87[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs931637	0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs9986090	0.83[CHB][hapmap];0.92[ASN][1000 genomes]
rs9998089	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh 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	11 gene(s)	inside rSNPs	diseases
2	nsv830100	chr4:143216951-143393305	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143367000-143392600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:143369200-143410600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr4:143371600-143400800	Weak transcription	Aorta	Aorta
4	chr4:143380000-143382400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr4:143380200-143382800	Weak transcription	A549	lung
6	chr4:143380400-143390400	Weak transcription	Esophagus	oesophagus
7	chr4:143380400-143394800	Weak transcription	Pancreas	Pancrea
8	chr4:143381200-143384000	Weak transcription	Fetal Intestine Small	intestine
9	chr4:143381400-143382000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr4:143381400-143382000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr4:143381600-143384200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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