Variant report

Variant	rs10240752
Chromosome Location	chr7:16469491-16469492
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:16459387..16461845-chr7:16467572..16471113,4	MCF-7	breast:
2	chr7:16468224..16469938-chr7:16474022..16476641,2	K562	blood:
3	chr7:16155299..16158240-chr7:16469053..16471948,2	MCF-7	breast:
4	chr7:16467203..16469517-chr7:16495684..16498438,2	K562	blood:

Variant related genes	Relation type
ENSG00000214960	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10232515	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10253784	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10257504	0.81[CEU][hapmap]
rs10259225	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10267886	0.96[CEU][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10272029	0.82[ASW][hapmap];1.00[CEU][hapmap];0.96[GIH][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10950618	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10950619	0.81[CEU][hapmap]
rs17169465	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2178597	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2389634	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2389635	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28512480	0.82[EUR][1000 genomes]
rs36199445	0.84[AMR][1000 genomes]
rs3903222	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4351322	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs60155393	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6461248	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6461250	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6461251	0.88[EUR][1000 genomes]
rs6461252	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6461254	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6461255	0.83[EUR][1000 genomes]
rs6944820	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6948660	0.81[CEU][hapmap]
rs6949112	0.81[CEU][hapmap]
rs6949292	1.00[CEU][hapmap];0.96[GIH][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6949353	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6955398	0.81[CEU][hapmap]
rs6958802	0.81[CEU][hapmap]
rs6966496	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6976548	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7782304	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7783283	0.83[EUR][1000 genomes]
rs7810190	0.93[EUR][1000 genomes]
rs7810822	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7811104	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9655136	0.96[CEU][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap];0.80[EUR][1000 genomes]
rs9691296	0.82[EUR][1000 genomes]
rs9886352	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016642	chr7:15884061-16799788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	esv2759514	chr7:16236162-16527390	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	esv2758105	chr7:16272822-16527390	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv1034151	chr7:16415497-16578081	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:16461600-16469600	Weak transcription	Gastric	stomach
2	chr7:16461600-16478600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr7:16462200-16473200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr7:16462600-16473400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr7:16468000-16470200	Enhancers	K562	blood
6	chr7:16468000-16470200	Enhancers	NH-A	brain
7	chr7:16468000-16470400	Enhancers	Stomach Mucosa	stomach
8	chr7:16468000-16470400	Enhancers	Osteobl	bone
9	chr7:16468200-16469800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr7:16468600-16469600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr7:16468600-16469600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr7:16468800-16469600	Weak transcription	NHLF	lung
13	chr7:16469200-16469600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr7:16469400-16470000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links