Variant report

Variant	rs2298830
Chromosome Location	chr11:83817360-83817361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 140 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:135)

rs_ID	r²[population]
rs1014066	0.86[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs10501555	0.86[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs10736760	0.90[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap]
rs10751104	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs10751105	0.86[CHB][hapmap]
rs10751106	0.80[CHB][hapmap]
rs10792705	0.80[CHB][hapmap]
rs10792710	0.80[CHB][hapmap]
rs10792712	0.85[CHB][hapmap]
rs10792713	0.95[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.83[JPT][hapmap]
rs10792716	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.90[EUR][1000 genomes]
rs10792717	0.95[CHB][hapmap];0.96[CHD][hapmap];0.83[JPT][hapmap];0.83[MEX][hapmap]
rs10792718	0.91[CEU][hapmap];0.95[CHB][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];0.88[EUR][1000 genomes]
rs10792719	0.90[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs10792720	0.86[ASN][1000 genomes]
rs10792721	0.86[ASN][1000 genomes]
rs10792722	0.90[CHB][hapmap];0.96[CHD][hapmap];0.82[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.86[ASN][1000 genomes]
rs10792723	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs10792725	0.90[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap]
rs10792727	0.86[CHB][hapmap]
rs10792728	0.86[CHB][hapmap]
rs10792731	0.80[CHB][hapmap];0.86[TSI][hapmap]
rs10898192	0.80[CHB][hapmap]
rs10898199	0.95[CHB][hapmap];0.89[CHD][hapmap];0.84[GIH][hapmap];0.83[JPT][hapmap]
rs10898202	1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs10898204	0.90[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs10898205	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap]
rs10898206	0.95[CHB][hapmap];0.83[JPT][hapmap];0.93[YRI][hapmap];0.85[AMR][1000 genomes]
rs10898207	0.94[ASW][hapmap];0.95[CHB][hapmap];0.96[CHD][hapmap];0.86[GIH][hapmap];0.83[JPT][hapmap];0.95[LWK][hapmap];0.93[MEX][hapmap];0.87[TSI][hapmap];0.93[YRI][hapmap];0.85[AMR][1000 genomes]
rs11233900	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs11602701	0.81[JPT][hapmap]
rs12285610	0.86[GIH][hapmap]
rs12363188	1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs12574301	0.94[CHB][hapmap]
rs12577433	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs1349820	0.80[CHB][hapmap];0.82[MEX][hapmap]
rs1377745	0.85[CHB][hapmap]
rs1377746	0.86[CHB][hapmap]
rs1377747	0.86[CHB][hapmap]
rs1377748	0.80[CHB][hapmap];0.88[TSI][hapmap]
rs1384751	0.85[CHB][hapmap]
rs1454016	0.81[CHB][hapmap]
rs1454019	0.86[CHB][hapmap]
rs1454026	0.80[CHB][hapmap]
rs1454027	0.81[CHB][hapmap];0.83[CHD][hapmap];0.81[MEX][hapmap]
rs1483384	0.85[CHB][hapmap]
rs1540188	0.85[CHB][hapmap]
rs1551334	0.86[CHB][hapmap];0.84[CHD][hapmap];0.86[GIH][hapmap];0.87[TSI][hapmap]
rs1573570	0.94[CHB][hapmap]
rs1573572	0.86[CHB][hapmap];0.90[CHD][hapmap];0.88[MEX][hapmap]
rs1573574	1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.90[EUR][1000 genomes]
rs1601095	0.80[CHB][hapmap]
rs1620817	0.90[CHB][hapmap]
rs1793037	0.86[CHB][hapmap]
rs1793038	0.86[CHB][hapmap]
rs1793039	0.86[CHB][hapmap]
rs1869472	0.86[CHB][hapmap];0.86[CHD][hapmap];0.88[MEX][hapmap]
rs1894169	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs1894170	0.95[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs1894171	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs1894172	0.95[CHB][hapmap];0.89[CHD][hapmap];0.84[GIH][hapmap];0.83[JPT][hapmap]
rs1945799	1.00[CHB][hapmap];0.96[CHD][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.89[ASN][1000 genomes]
rs1945800	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.81[MEX][hapmap];0.84[ASN][1000 genomes]
rs1945801	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1945805	0.85[CHB][hapmap]
rs1945807	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1945808	0.90[CHB][hapmap];0.96[CHD][hapmap];0.86[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.86[ASN][1000 genomes]
rs1945814	0.85[CHB][hapmap]
rs1945816	0.85[CHB][hapmap]
rs1945820	0.86[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs1945822	0.86[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs1945823	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs1945824	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs1945825	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs1945826	0.86[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs1945827	0.88[CHB][hapmap];0.80[JPT][hapmap]
rs1945828	0.95[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs1945830	0.90[EUR][1000 genomes]
rs1945832	0.95[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.83[JPT][hapmap]
rs1984374	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs2000961	0.86[CHB][hapmap];0.89[CHD][hapmap];0.88[MEX][hapmap]
rs2032401	0.95[CHB][hapmap];0.96[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs2051472	0.95[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];0.83[JPT][hapmap];0.81[MEX][hapmap]
rs2105806	0.90[CHB][hapmap];0.96[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs2156848	0.80[CHB][hapmap]
rs2625510	0.85[CHB][hapmap]
rs2625514	0.80[CHB][hapmap]
rs2625518	0.80[CHB][hapmap]
rs2853022	0.81[CHB][hapmap]
rs3750917	0.83[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs3905309	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs4547116	0.81[CHB][hapmap];0.87[CHD][hapmap];0.83[MEX][hapmap]
rs4586191	0.85[CHB][hapmap]
rs4943885	0.85[CHB][hapmap];0.86[GIH][hapmap]
rs4943886	0.95[CHB][hapmap];0.86[CHD][hapmap];0.80[GIH][hapmap];0.83[JPT][hapmap]
rs4944460	0.85[CHB][hapmap]
rs4944461	0.95[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.83[JPT][hapmap]
rs4944463	1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.90[EUR][1000 genomes]
rs4944464	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs4944468	0.81[CHB][hapmap];0.83[CHD][hapmap]
rs4944471	0.80[CHB][hapmap]
rs4944472	0.80[CHB][hapmap]
rs6592163	0.95[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];0.83[JPT][hapmap];0.81[MEX][hapmap]
rs6592164	0.90[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs6592165	0.90[CHB][hapmap];0.96[CHD][hapmap];0.86[GIH][hapmap];0.89[JPT][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.87[ASN][1000 genomes]
rs7103649	0.84[CHB][hapmap]
rs7104249	0.81[CEU][hapmap];0.89[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs7108582	0.95[CHB][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs7109671	0.95[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];0.83[JPT][hapmap];0.81[MEX][hapmap]
rs7114261	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs7114926	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs7123516	0.90[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs7123584	0.90[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs756197	0.86[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs7924476	0.94[CHB][hapmap]
rs7924503	0.95[CHB][hapmap];0.81[JPT][hapmap]
rs7924835	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs7925643	0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs7927039	0.95[CHB][hapmap];0.87[CHD][hapmap];0.83[JPT][hapmap]
rs7927619	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs7928752	0.85[CHB][hapmap];0.81[GIH][hapmap]
rs7929117	0.96[ASN][1000 genomes]
rs7929774	0.93[CHB][hapmap];0.81[JPT][hapmap]
rs7935399	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7941004	0.80[CHB][hapmap]
rs7943267	0.85[CHB][hapmap]
rs7948263	0.86[CHB][hapmap]
rs7952399	0.88[CHB][hapmap]
rs872510	0.86[CHB][hapmap];0.96[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs872511	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs872512	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs884873	0.89[CHB][hapmap];0.80[JPT][hapmap]
rs963146	0.84[CHB][hapmap]
rs970226	0.90[CHB][hapmap]
rs988322	0.80[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039924	chr11:83662904-83993497	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv541102	chr11:83662904-83993497	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv898028	chr11:83717887-83817360	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a
4	nsv898029	chr11:83717887-83939591	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv2751034	chr11:83801970-83840272	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:83814600-83817400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr11:83814600-83817400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:83814600-83817400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr11:83814800-83817400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr11:83814800-83817600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:83814800-83817800	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr11:83814800-83819800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr11:83816400-83820000	Enhancers	Brain Substantia Nigra	brain
9	chr11:83816600-83829200	Weak transcription	Brain Angular Gyrus	brain
10	chr11:83817000-83819000	Enhancers	Brain Hippocampus Middle	brain

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