Variant report

Variant	rs10239916
Chromosome Location	chr7:108075810-108075811
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:108073710..108079675-chr7:108095201..108098586,8	MCF-7	breast:
2	chr7:108073352..108076063-chr7:108095683..108098025,4	MCF-7	breast:
3	chr7:108069523..108074084-chr7:108075336..108078341,6	MCF-7	breast:
4	chr7:108074243..108076743-chr7:108091855..108094696,3	MCF-7	breast:
5	chr7:108073988..108076777-chr7:108078660..108081036,2	K562	blood:

Variant related genes	Relation type
ENSG00000091129	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10235291	0.87[EUR][1000 genomes]
rs10240397	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10241916	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10241941	1.00[GIH][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes]
rs10264851	1.00[GIH][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes]
rs10264905	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10278718	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10280579	1.00[GIH][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes]
rs1116335	0.97[EUR][1000 genomes]
rs1269688	1.00[YRI][hapmap]
rs12705468	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1558037	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1558039	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2158849	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2160555	1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2240450	1.00[GIH][hapmap]
rs2395964	0.89[EUR][1000 genomes]
rs2395996	1.00[GIH][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2395997	1.00[GIH][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2395998	0.97[EUR][1000 genomes]
rs2395999	1.00[GIH][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes]
rs4727711	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730310	1.00[GIH][hapmap];0.82[TSI][hapmap];0.97[EUR][1000 genomes]
rs4730311	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730312	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730313	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4730314	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730315	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730316	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730317	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4730319	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6466227	1.00[GIH][hapmap];0.97[EUR][1000 genomes]
rs6466228	1.00[GIH][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes]
rs6466229	1.00[GIH][hapmap];0.90[TSI][hapmap];0.97[EUR][1000 genomes]
rs6466230	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6466231	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6466232	0.97[EUR][1000 genomes]
rs6944286	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6948610	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6973727	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6975183	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7780552	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7782059	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7787736	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7788503	1.00[ASW][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7792379	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7799296	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9656149	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs970660	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 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	chr7:108067600-108081000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr7:108067800-108089400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:108068000-108089400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr7:108069000-108086000	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr7:108074600-108076400	Enhancers	A549	lung
6	chr7:108075200-108085200	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr7:108075400-108081000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr7:108075400-108081200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr7:108075600-108076400	Enhancers	HUVEC	blood vessel
10	chr7:108075800-108076200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr7:108075800-108089400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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