Variant report

Variant	rs6689915
Chromosome Location	chr1:225353670-225353671
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 172 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:166)

rs_ID	r²[population]
rs10158933	0.83[ASN][1000 genomes]
rs10495229	0.93[CHB][hapmap]
rs10495230	0.81[ASN][1000 genomes]
rs10915779	0.83[CEU][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes]
rs12561993	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs12562085	0.92[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12563033	0.83[ASN][1000 genomes]
rs12563286	0.91[ASN][1000 genomes]
rs12563857	0.92[CHB][hapmap];0.83[ASN][1000 genomes]
rs12564045	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs12565401	0.88[ASN][1000 genomes]
rs12565439	0.93[CHB][hapmap];0.84[JPT][hapmap]
rs12565823	0.88[ASN][1000 genomes]
rs12566857	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs12567499	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs12568142	0.83[ASN][1000 genomes]
rs12568753	0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs1480104	0.87[ASN][1000 genomes]
rs1482279	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs1482280	0.93[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs1506069	0.87[JPT][hapmap];0.80[EUR][1000 genomes]
rs1506070	0.92[CHB][hapmap];0.83[ASN][1000 genomes]
rs1506071	0.81[CEU][hapmap];0.87[JPT][hapmap];0.83[EUR][1000 genomes]
rs1506072	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1506074	0.88[EUR][1000 genomes]
rs1542571	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1587980	0.83[ASN][1000 genomes]
rs1600532	0.88[ASN][1000 genomes]
rs16843950	0.92[CHB][hapmap];0.88[ASN][1000 genomes]
rs16843956	0.93[CHB][hapmap];0.88[ASN][1000 genomes]
rs16843988	0.93[CHB][hapmap];0.88[ASN][1000 genomes]
rs16843997	0.88[ASN][1000 genomes]
rs16844005	0.88[ASN][1000 genomes]
rs16844334	0.88[ASN][1000 genomes]
rs16844355	0.92[CHB][hapmap];0.88[ASN][1000 genomes]
rs16844377	0.92[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs16844400	0.91[ASN][1000 genomes]
rs16858932	0.93[CHB][hapmap]
rs16858962	0.93[CHB][hapmap];0.86[JPT][hapmap]
rs1832540	0.89[EUR][1000 genomes]
rs1905113	0.83[ASN][1000 genomes]
rs1905114	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs1905115	0.82[ASN][1000 genomes]
rs1905117	0.82[ASN][1000 genomes]
rs1934203	0.89[ASN][1000 genomes]
rs1982707	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs2086368	0.93[CHB][hapmap];0.88[ASN][1000 genomes]
rs2199832	0.90[ASN][1000 genomes]
rs2291227	0.92[CHB][hapmap];0.83[JPT][hapmap]
rs2449256	0.83[CEU][hapmap];0.87[JPT][hapmap];0.81[EUR][1000 genomes]
rs2449258	0.81[EUR][1000 genomes]
rs2449259	0.92[CHB][hapmap]
rs2449273	0.92[CHB][hapmap];0.83[ASN][1000 genomes]
rs2449274	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs2449276	0.92[CHB][hapmap];0.83[ASN][1000 genomes]
rs2449280	0.83[ASN][1000 genomes]
rs2449281	0.83[EUR][1000 genomes]
rs2449292	0.92[CHB][hapmap]
rs2449304	0.85[EUR][1000 genomes]
rs2449311	0.92[CHB][hapmap];0.83[ASN][1000 genomes]
rs2449313	0.92[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs2449315	0.83[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2456335	0.93[CHB][hapmap];0.84[ASN][1000 genomes]
rs2456336	0.83[CEU][hapmap];0.88[JPT][hapmap];0.85[EUR][1000 genomes]
rs2456339	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs2456340	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs2456349	0.82[CEU][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes]
rs2489322	0.93[CHB][hapmap]
rs2489324	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2489327	0.81[CEU][hapmap];0.87[JPT][hapmap];0.81[EUR][1000 genomes]
rs2489337	0.87[JPT][hapmap]
rs2489343	0.81[EUR][1000 genomes]
rs2489346	0.87[JPT][hapmap];0.81[EUR][1000 genomes]
rs2489348	0.81[EUR][1000 genomes]
rs2489352	0.81[EUR][1000 genomes]
rs2501100	0.88[EUR][1000 genomes]
rs2501101	0.88[EUR][1000 genomes]
rs2501110	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs2501114	0.86[CHB][hapmap]
rs2501120	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2501125	0.82[ASN][1000 genomes]
rs2501129	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs2501130	0.92[CHB][hapmap]
rs2501135	0.92[CHB][hapmap]
rs2501141	0.93[CHB][hapmap]
rs2501147	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2501151	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2501156	0.93[CHB][hapmap]
rs2929626	0.81[EUR][1000 genomes]
rs2939363	0.83[CEU][hapmap];0.87[JPT][hapmap];0.83[EUR][1000 genomes]
rs3101904	0.93[EUR][1000 genomes]
rs3101907	0.84[ASN][1000 genomes]
rs3101908	0.92[CHB][hapmap];0.84[ASN][1000 genomes]
rs3101910	0.84[EUR][1000 genomes]
rs3101915	0.87[ASN][1000 genomes]
rs3101916	0.93[EUR][1000 genomes]
rs3101917	0.93[EUR][1000 genomes]
rs3101919	0.88[ASN][1000 genomes]
rs3102106	0.81[EUR][1000 genomes]
rs3102114	0.84[ASN][1000 genomes]
rs3102115	0.93[EUR][1000 genomes]
rs3105549	0.84[ASN][1000 genomes]
rs3105555	0.84[ASN][1000 genomes]
rs3105564	0.93[EUR][1000 genomes]
rs3105570	0.84[ASN][1000 genomes]
rs3105571	0.84[ASN][1000 genomes]
rs3105572	0.93[EUR][1000 genomes]
rs3120985	0.88[ASN][1000 genomes]
rs3120989	0.93[EUR][1000 genomes]
rs3120991	0.89[EUR][1000 genomes]
rs3120992	0.84[ASN][1000 genomes]
rs3120993	0.93[EUR][1000 genomes]
rs3128654	0.93[EUR][1000 genomes]
rs3128655	0.93[EUR][1000 genomes]
rs3128657	0.90[EUR][1000 genomes]
rs3128659	0.92[CHB][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs3128663	0.84[ASN][1000 genomes]
rs3128664	0.89[EUR][1000 genomes]
rs3128665	0.84[ASN][1000 genomes]
rs3128666	0.93[EUR][1000 genomes]
rs3128667	0.93[EUR][1000 genomes]
rs3128669	0.84[ASN][1000 genomes]
rs3128670	0.84[ASN][1000 genomes]
rs3991317	0.91[ASN][1000 genomes]
rs4342820	0.92[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs55681905	0.88[ASN][1000 genomes]
rs55761817	0.82[ASN][1000 genomes]
rs55764147	0.84[EUR][1000 genomes]
rs55785201	0.81[ASN][1000 genomes]
rs55786647	0.82[ASN][1000 genomes]
rs55876129	0.83[ASN][1000 genomes]
rs55962425	0.83[ASN][1000 genomes]
rs56061128	0.88[ASN][1000 genomes]
rs56107523	0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs56251723	0.81[ASN][1000 genomes]
rs56337810	0.81[ASN][1000 genomes]
rs56339924	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57889280	0.81[ASN][1000 genomes]
rs58279596	0.88[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs60392992	0.88[ASN][1000 genomes]
rs60692803	0.92[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs61211002	0.93[EUR][1000 genomes]
rs61438284	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6426049	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6426051	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6426052	0.93[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6662231	0.92[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6683938	0.96[EUR][1000 genomes]
rs6686694	0.88[EUR][1000 genomes]
rs6693155	0.86[CHB][hapmap]
rs6697156	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs6697382	0.91[EUR][1000 genomes]
rs6700755	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6702733	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6702926	0.91[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7517625	0.88[ASN][1000 genomes]
rs7521702	0.91[EUR][1000 genomes]
rs7523949	0.93[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs7531542	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs7547639	0.87[ASN][1000 genomes]
rs7548138	0.93[EUR][1000 genomes]
rs769295	0.90[ASN][1000 genomes]
rs973980	0.93[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs981068	0.81[ASN][1000 genomes]
rs9919209	0.80[EUR][1000 genomes]
rs995613	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873225	chr1:225162060-225373936	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv998899	chr1:225210813-225496353	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv468205	chr1:225304971-225476025	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv549264	chr1:225304971-225476025	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv945672	chr1:225339532-225561349	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv873226	chr1:225347689-225555602	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225301800-225355800	Weak transcription	Pancreas	Pancrea
2	chr1:225322000-225356000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:225326400-225355800	Weak transcription	Ovary	ovary
4	chr1:225332800-225356000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:225338200-225355600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr1:225344000-225356200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr1:225353400-225355800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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