Variant report

Variant	rs898972
Chromosome Location	chr11:108696461-108696462
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr11:108696280-108696471	MCF10A-Er-Src	breast:	n/a	n/a
2	CEBPB	chr11:108696291-108696539	HepG2	liver:	n/a	chr11:108696412-108696423
3	FOS	chr11:108696290-108696498	MCF10A-Er-Src	breast:	n/a	n/a
4	E2F4	chr11:108696385-108696671	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr11:108696254-108696490	MCF10A-Er-Src	breast:	n/a	n/a
6	CEBPB	chr11:108696304-108696528	K562	blood:	n/a	chr11:108696412-108696423

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:108694511..108697317-chr11:108697385..108699740,2	K562	blood:
2	chr11:108695140..108698034-chr11:108715327..108717673,2	K562	blood:

Variant related genes	Relation type
CYCSP29	TF binding region

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10502103	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10749924	0.82[ASN][1000 genomes]
rs10749925	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11212824	0.82[ASN][1000 genomes]
rs11828110	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12574567	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12574721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574758	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12575278	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.84[LWK][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12577382	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12577980	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12785398	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12785439	0.90[ASN][1000 genomes]
rs12786616	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12790940	1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs12793497	1.00[TSI][hapmap]
rs12794048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12794597	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12795663	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12796331	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.92[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12800516	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12800726	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12801974	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12802313	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12803616	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12808060	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12808674	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1365046	0.82[ASN][1000 genomes]
rs1365047	0.85[CHB][hapmap];0.82[ASN][1000 genomes]
rs1365048	0.81[ASN][1000 genomes]
rs1462787	0.93[ASN][1000 genomes]
rs1482268	0.82[ASN][1000 genomes]
rs17108571	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17108579	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.83[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17108608	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17108703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17108744	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2042677	0.82[ASN][1000 genomes]
rs2042678	0.81[ASN][1000 genomes]
rs2061681	0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2553749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2553750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2553751	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2553754	0.85[CHB][hapmap];0.85[CHD][hapmap];0.82[ASN][1000 genomes]
rs2553757	0.85[CHB][hapmap];0.82[CHD][hapmap];0.82[ASN][1000 genomes]
rs2553758	0.80[ASN][1000 genomes]
rs2553760	0.85[CHB][hapmap];0.82[CHD][hapmap];0.80[ASN][1000 genomes]
rs2553761	0.85[CHB][hapmap];0.82[CHD][hapmap];0.80[ASN][1000 genomes]
rs2615727	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2615756	0.94[CHB][hapmap];0.98[ASN][1000 genomes]
rs2726885	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2726886	0.90[CHD][hapmap]
rs2726896	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2726907	0.81[ASN][1000 genomes]
rs2726908	0.81[ASN][1000 genomes]
rs2726910	0.85[CHB][hapmap];0.82[CHD][hapmap];0.82[ASN][1000 genomes]
rs2726911	0.85[CHB][hapmap];0.82[CHD][hapmap];0.82[ASN][1000 genomes]
rs2726913	0.85[CHB][hapmap];0.85[CHD][hapmap];0.82[ASN][1000 genomes]
rs2726914	0.85[CHB][hapmap];0.82[ASN][1000 genomes]
rs2726915	0.82[ASN][1000 genomes]
rs2726916	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs2726919	0.85[CHB][hapmap];0.82[ASN][1000 genomes]
rs2726920	0.85[CHB][hapmap];0.82[CHD][hapmap];0.80[ASN][1000 genomes]
rs28736339	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34138098	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34180595	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34350110	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34354308	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34363971	0.82[ASN][1000 genomes]
rs34451436	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34593113	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34805458	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34848528	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34942750	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35085871	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35244070	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35430545	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35517426	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35525430	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35754206	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35756735	0.81[ASN][1000 genomes]
rs35777838	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs36006135	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36034048	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36043878	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4317954	0.92[CEU][hapmap];0.91[CHB][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs57014838	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57484308	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7107825	0.81[ASN][1000 genomes]
rs71489913	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71489916	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71489918	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71489919	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71489922	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71489925	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71489928	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71489929	0.82[ASN][1000 genomes]
rs7930675	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs970162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs970164	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][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	nsv1052254	chr11:108122683-108845008	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active 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	28 gene(s)	inside rSNPs	diseases
2	nsv541164	chr11:108122683-108845008	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv898386	chr11:108409442-108831875	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv898388	chr11:108440814-108724639	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking 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	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108675600-108709400	Weak transcription	Left Ventricle	heart
2	chr11:108675800-108700000	Weak transcription	GM12878-XiMat	blood
3	chr11:108676000-108708000	Weak transcription	Primary B cells from cord blood	blood
4	chr11:108677600-108709600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr11:108680400-108709400	Weak transcription	Primary T cells from cord blood	blood
6	chr11:108680600-108724400	Weak transcription	Aorta	Aorta
7	chr11:108687000-108717000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr11:108692200-108709400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr11:108695400-108697200	Weak transcription	Spleen	Spleen
10	chr11:108695600-108698600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr11:108696200-108698200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr11:108696400-108696600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr11:108696400-108709200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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