Variant report

Variant	rs10199264
Chromosome Location	chr2:189217082-189217083
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:189216542..189219160-chr2:189223081..189224726,2	MCF-7	breast:

Extended variants
information (count: 180 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:173)

rs_ID	r²[population]
rs10167709	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10169317	0.89[ASN][1000 genomes]
rs10170220	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10174928	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10175838	0.84[AFR][1000 genomes]
rs10179504	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10179836	0.81[AFR][1000 genomes]
rs10179899	0.83[AFR][1000 genomes]
rs10180000	0.87[AFR][1000 genomes]
rs10180687	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10180956	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10182377	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10184703	0.83[AFR][1000 genomes]
rs10185828	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10187646	0.83[AFR][1000 genomes]
rs10187791	0.83[AFR][1000 genomes]
rs10189197	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10189376	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10189416	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10192374	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10195059	0.81[EUR][1000 genomes]
rs10198025	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10199112	0.89[ASN][1000 genomes]
rs10202605	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10204674	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10206167	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10206696	0.89[ASN][1000 genomes]
rs10209424	0.81[AFR][1000 genomes]
rs10209733	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10210696	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10211189	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10931355	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10931358	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1125099	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11682085	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12151691	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12329399	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12693491	0.83[AFR][1000 genomes]
rs12693492	0.84[AFR][1000 genomes]
rs12693493	0.84[AFR][1000 genomes]
rs12693495	0.80[AFR][1000 genomes]
rs12693497	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12693498	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12987194	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12987553	0.84[AFR][1000 genomes]
rs12990374	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12995727	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs13007721	0.80[AFR][1000 genomes]
rs13014693	0.81[ASN][1000 genomes]
rs13021294	0.80[AFR][1000 genomes]
rs13032231	0.87[AFR][1000 genomes]
rs13382200	0.85[AFR][1000 genomes]
rs13384413	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13387350	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13388723	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13388746	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13389155	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13389879	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13390401	0.85[AFR][1000 genomes]
rs13394232	0.84[AFR][1000 genomes]
rs13394421	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13394422	0.81[AMR][1000 genomes]
rs13397237	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13397399	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13404958	0.87[AFR][1000 genomes]
rs13412312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13415123	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13420369	0.89[ASN][1000 genomes]
rs13422246	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13422836	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13423891	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13424536	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13426709	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13427070	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28542209	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28564315	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28572636	0.80[AFR][1000 genomes]
rs34000922	0.81[AFR][1000 genomes]
rs34189381	0.82[ASN][1000 genomes]
rs34209722	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34253555	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34557812	0.84[AFR][1000 genomes]
rs34575499	0.87[AFR][1000 genomes]
rs34737832	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35196443	0.87[AFR][1000 genomes]
rs35954758	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35964306	0.81[ASN][1000 genomes]
rs36070354	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3890574	0.84[EUR][1000 genomes]
rs4128404	0.87[AFR][1000 genomes]
rs4261684	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4274570	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4340469	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4349309	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4361092	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4381754	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4398237	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4430902	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4433962	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4458180	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4476318	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4522565	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4592814	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4640356	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4666758	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4667219	0.87[AFR][1000 genomes]
rs4667220	0.87[AFR][1000 genomes]
rs4667225	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4667226	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4667227	0.80[EUR][1000 genomes]
rs4992742	0.87[AFR][1000 genomes]
rs4992743	0.90[AFR][1000 genomes]
rs4992744	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55693630	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56072532	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58966470	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58978246	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59206116	0.81[EUR][1000 genomes]
rs60796263	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6434273	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6434277	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6434280	0.80[EUR][1000 genomes]
rs66923332	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66971459	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6704814	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6706666	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67086516	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67092191	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6718999	0.89[ASN][1000 genomes]
rs6720002	0.83[AFR][1000 genomes]
rs6720983	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs67240894	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6725860	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6727850	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6729182	0.91[ASN][1000 genomes]
rs6737728	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67389016	0.87[AFR][1000 genomes]
rs6739162	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6743120	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6743636	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6748077	0.83[AFR][1000 genomes]
rs6756220	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6759539	0.89[ASN][1000 genomes]
rs6759766	0.89[ASN][1000 genomes]
rs6761769	0.82[EUR][1000 genomes]
rs6761785	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67750782	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67790470	0.88[ASN][1000 genomes]
rs67798410	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67919447	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72907672	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72909512	0.81[EUR][1000 genomes]
rs72909520	0.81[EUR][1000 genomes]
rs72911423	0.81[EUR][1000 genomes]
rs73040452	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7420700	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7561448	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7566619	0.81[ASN][1000 genomes]
rs7571197	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs7571494	0.83[AFR][1000 genomes]
rs7574262	0.81[ASN][1000 genomes]
rs7579554	0.87[AFR][1000 genomes]
rs7579610	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7582137	0.89[ASN][1000 genomes]
rs7586390	0.81[ASN][1000 genomes]
rs7593215	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7593232	0.81[EUR][1000 genomes]
rs7595327	0.82[EUR][1000 genomes]
rs7595377	0.89[ASN][1000 genomes]
rs7606178	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7607063	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9288152	0.81[AFR][1000 genomes]
rs9288157	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010394	chr2:188994398-189284092	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
2	nsv998395	chr2:189018246-189284092	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1010330	chr2:189182307-189265614	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv584053	chr2:189184422-189245515	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv999135	chr2:189184937-189265614	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv584054	chr2:189185726-189233419	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv534341	chr2:189200405-189368467	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189192200-189225200	Weak transcription	Placenta	Placenta
2	chr2:189194600-189218200	Weak transcription	Gastric	stomach
3	chr2:189199400-189247600	Weak transcription	Aorta	Aorta
4	chr2:189200600-189221600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr2:189205200-189228800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr2:189205600-189227400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr2:189206000-189220400	Weak transcription	Fetal Stomach	stomach
8	chr2:189206200-189218200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr2:189206400-189218800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:189210200-189217400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr2:189210200-189224600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr2:189210400-189225200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr2:189211000-189218000	Weak transcription	A549	lung
14	chr2:189211000-189218200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr2:189211000-189220200	Weak transcription	Fetal Lung	lung
16	chr2:189211000-189221000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr2:189211000-189243400	Weak transcription	HUVEC	blood vessel
18	chr2:189212000-189218000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr2:189212200-189218200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr2:189212600-189218600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr2:189214800-189217200	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr2:189216600-189217200	Enhancers	H9 Cell Line	embryonic stem cell
23	chr2:189216800-189224600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr2:189217000-189217200	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr2:189217000-189218200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr2:189217000-189218200	Weak transcription	Pancreas	Pancrea
27	chr2:189217000-189218800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr2:189217000-189223800	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr2:189217000-189234600	Weak transcription	Psoas Muscle	Psoas

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