Variant report

Variant	rs1859694
Chromosome Location	chr7:41171052-41171053
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:41162698..41164993-chr7:41169262..41172086,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10227446	0.91[ASN][1000 genomes]
rs10227663	0.90[ASN][1000 genomes]
rs10256962	0.91[ASN][1000 genomes]
rs10258940	0.94[ASN][1000 genomes]
rs10274211	0.94[ASN][1000 genomes]
rs10279346	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10755853	0.89[ASN][1000 genomes]
rs10755854	0.89[ASN][1000 genomes]
rs12670349	0.86[ASN][1000 genomes]
rs12701863	0.87[ASN][1000 genomes]
rs12701864	0.88[ASN][1000 genomes]
rs13222193	0.87[ASN][1000 genomes]
rs13222281	0.87[ASN][1000 genomes]
rs13234888	0.86[ASN][1000 genomes]
rs13246656	0.84[ASN][1000 genomes]
rs1859692	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1859693	0.95[ASN][1000 genomes]
rs2108155	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2108156	0.95[ASN][1000 genomes]
rs2108157	0.90[ASN][1000 genomes]
rs2190329	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2330001	0.89[ASN][1000 genomes]
rs28176	0.86[EUR][1000 genomes]
rs28880	0.94[ASN][1000 genomes]
rs29476	0.94[ASN][1000 genomes]
rs29477	0.94[ASN][1000 genomes]
rs29478	0.94[ASN][1000 genomes]
rs29479	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29480	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29481	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs29482	0.94[ASN][1000 genomes]
rs29484	0.88[EUR][1000 genomes]
rs29492	0.87[EUR][1000 genomes]
rs29503	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs29508	0.85[EUR][1000 genomes]
rs29509	0.86[EUR][1000 genomes]
rs29511	0.86[EUR][1000 genomes]
rs29516	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs29517	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs29519	0.84[EUR][1000 genomes]
rs29522	0.84[EUR][1000 genomes]
rs29524	0.84[EUR][1000 genomes]
rs4720399	0.94[ASN][1000 genomes]
rs4724027	0.82[ASN][1000 genomes]
rs4724028	0.89[ASN][1000 genomes]
rs4724029	0.93[ASN][1000 genomes]
rs6463004	0.89[ASN][1000 genomes]
rs6463005	0.90[ASN][1000 genomes]
rs6463006	0.93[ASN][1000 genomes]
rs6463007	0.93[ASN][1000 genomes]
rs6463008	0.88[ASN][1000 genomes]
rs6945256	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6945901	0.93[ASN][1000 genomes]
rs6946898	0.93[ASN][1000 genomes]
rs6947021	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6958423	0.93[ASN][1000 genomes]
rs6958959	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6967416	0.89[ASN][1000 genomes]
rs6970635	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6971196	0.87[ASN][1000 genomes]
rs6971616	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6975061	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6978132	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7790556	0.91[ASN][1000 genomes]
rs7799191	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7805795	0.93[ASN][1000 genomes]
rs7809083	0.86[ASN][1000 genomes]
rs9632614	0.89[ASN][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	nsv1034605	chr7:41096638-41222426	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv887989	chr7:41125447-41337044	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1028983	chr7:41165668-41635954	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:41129200-41175200	Weak transcription	Aorta	Aorta
2	chr7:41167600-41174400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:41168200-41175600	Enhancers	Fetal Brain Male	brain
4	chr7:41169000-41175400	Enhancers	Fetal Brain Female	brain
5	chr7:41169200-41171200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr7:41169600-41171800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr7:41169800-41171200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr7:41169800-41171400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr7:41169800-41175200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr7:41170000-41172200	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr7:41170000-41173400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr7:41170000-41174400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr7:41170400-41173400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr7:41170400-41173800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr7:41170400-41173800	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr7:41170600-41173200	Weak transcription	Brain Germinal Matrix	brain
17	chr7:41170600-41173400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr7:41170600-41173600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr7:41170600-41175200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr7:41170800-41173400	Weak transcription	Fetal Muscle Leg	muscle
21	chr7:41170800-41173800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr7:41171000-41171400	Enhancers	Placenta	Placenta
23	chr7:41171000-41171600	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links