Variant report

Variant	rs13401975
Chromosome Location	chr2:189212373-189212374
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	chr2:189206358..189208167-chr2:189210303..189213295,2	K562	blood:
2	chr2:189211594..189213777-chr2:189218302..189220048,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10153666	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10153862	1.00[AMR][1000 genomes]
rs10171583	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10174521	1.00[AMR][1000 genomes]
rs10184797	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10185493	0.82[AFR][1000 genomes]
rs10190081	0.86[AFR][1000 genomes]
rs10190630	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10192679	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10197598	1.00[AMR][1000 genomes]
rs10198965	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10199401	0.93[AFR][1000 genomes]
rs10207510	1.00[AMR][1000 genomes]
rs10211425	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10211482	1.00[AMR][1000 genomes]
rs10439261	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11904835	1.00[AMR][1000 genomes]
rs13386579	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13390367	1.00[AMR][1000 genomes]
rs13391799	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13392080	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13393442	0.88[AFR][1000 genomes]
rs13399903	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13401242	1.00[AMR][1000 genomes]
rs13401321	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13402240	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13403672	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13404901	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13411351	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13414813	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13418323	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13423468	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13424443	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28528331	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4667232	1.00[AMR][1000 genomes]
rs59080597	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6434287	1.00[AMR][1000 genomes]
rs6705869	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6710795	1.00[AMR][1000 genomes]
rs6742748	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6748075	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6755644	1.00[AMR][1000 genomes]
rs6759147	1.00[AMR][1000 genomes]
rs6761280	1.00[AMR][1000 genomes]
rs7589600	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9288154	0.89[AFR][1000 genomes]
rs9288156	0.88[AFR][1000 genomes];1.00[AMR][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:30 , 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	chr2:189205600-189215600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr2:189205600-189227400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr2:189206000-189220400	Weak transcription	Fetal Stomach	stomach
9	chr2:189206200-189218200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr2:189206400-189218800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:189209600-189215400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr2:189210200-189213400	Weak transcription	Fetal Brain Male	brain
13	chr2:189210200-189217400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr2:189210200-189224600	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr2:189210400-189214800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr2:189210400-189225200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr2:189210800-189213400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:189211000-189215200	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr2:189211000-189216600	Weak transcription	Colon Smooth Muscle	Colon
20	chr2:189211000-189218000	Weak transcription	A549	lung
21	chr2:189211000-189218200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr2:189211000-189220200	Weak transcription	Fetal Lung	lung
23	chr2:189211000-189221000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr2:189211000-189243400	Weak transcription	HUVEC	blood vessel
25	chr2:189211800-189212400	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr2:189211800-189212600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr2:189212000-189212400	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr2:189212000-189212600	Enhancers	H9 Cell Line	embryonic stem cell
29	chr2:189212000-189218000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr2:189212200-189218200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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