Variant report

Variant	rs7554740
Chromosome Location	chr1:174510117-174510118
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 228 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:215)

rs_ID	r²[population]
rs1013769	0.87[ASN][1000 genomes]
rs10489256	0.87[ASN][1000 genomes]
rs10489258	0.87[ASN][1000 genomes]
rs10489260	0.87[ASN][1000 genomes]
rs10798310	0.87[ASN][1000 genomes]
rs10798311	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10798312	0.87[ASN][1000 genomes]
rs10798313	0.87[ASN][1000 genomes]
rs10798314	0.82[ASN][1000 genomes]
rs10798315	0.87[ASN][1000 genomes]
rs10798319	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912772	0.87[ASN][1000 genomes]
rs10912774	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912775	0.82[ASN][1000 genomes]
rs10912776	0.87[ASN][1000 genomes]
rs10912777	0.84[ASN][1000 genomes]
rs10912778	0.87[ASN][1000 genomes]
rs10912779	0.87[ASN][1000 genomes]
rs10912782	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912786	0.87[ASN][1000 genomes]
rs10912789	0.87[ASN][1000 genomes]
rs10912791	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10912795	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10912799	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912800	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10912806	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10912820	0.89[EUR][1000 genomes]
rs10912821	0.88[AFR][1000 genomes]
rs10912822	0.88[AFR][1000 genomes]
rs10912823	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10912828	0.81[AFR][1000 genomes]
rs10912829	0.85[AFR][1000 genomes]
rs11484645	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11487399	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11799535	0.87[ASN][1000 genomes]
rs11799704	0.87[ASN][1000 genomes]
rs11802092	0.82[AFR][1000 genomes]
rs11807229	0.97[ASN][1000 genomes]
rs11809482	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12058377	0.87[ASN][1000 genomes]
rs12062016	0.85[AFR][1000 genomes]
rs12062170	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12062483	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12064743	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12065326	0.87[ASN][1000 genomes]
rs12065454	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12065825	0.88[AFR][1000 genomes]
rs12067463	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12069134	0.87[ASN][1000 genomes]
rs12070095	0.87[ASN][1000 genomes]
rs12071794	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12073751	0.87[ASN][1000 genomes]
rs12074416	0.82[ASN][1000 genomes]
rs12074754	0.87[ASN][1000 genomes]
rs12076548	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12077381	0.87[ASN][1000 genomes]
rs12077529	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12078960	0.87[ASN][1000 genomes]
rs12079334	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12080407	0.87[ASN][1000 genomes]
rs12080535	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12081012	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12081046	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12082012	0.90[AFR][1000 genomes]
rs12082139	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12083628	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12083972	0.87[ASN][1000 genomes]
rs12084291	0.87[ASN][1000 genomes]
rs12084948	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12085652	0.87[AFR][1000 genomes]
rs12086693	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12090860	0.87[ASN][1000 genomes]
rs12091056	0.87[ASN][1000 genomes]
rs12092768	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12093966	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12095629	0.87[ASN][1000 genomes]
rs12095679	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12097931	0.82[ASN][1000 genomes]
rs162815	0.83[EUR][1000 genomes]
rs16828481	0.87[ASN][1000 genomes]
rs16846938	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16846949	0.87[ASN][1000 genomes]
rs16847012	0.87[ASN][1000 genomes]
rs1793307	0.85[EUR][1000 genomes]
rs1793310	0.85[EUR][1000 genomes]
rs1806329	0.87[ASN][1000 genomes]
rs1883262	0.87[ASN][1000 genomes]
rs1989177	0.87[ASN][1000 genomes]
rs2012558	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2072759	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2205937	0.87[ASN][1000 genomes]
rs2281009	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2281010	0.82[ASN][1000 genomes]
rs2281011	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2760058	0.85[AFR][1000 genomes]
rs2771401	0.82[AFR][1000 genomes]
rs2860955	0.87[ASN][1000 genomes]
rs2860959	0.87[ASN][1000 genomes]
rs28628056	0.82[ASN][1000 genomes]
rs2901815	0.87[ASN][1000 genomes]
rs2901817	0.87[ASN][1000 genomes]
rs2901818	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2901820	0.87[ASN][1000 genomes]
rs332763	0.85[EUR][1000 genomes]
rs332764	0.85[EUR][1000 genomes]
rs332768	0.84[AFR][1000 genomes]
rs332772	0.85[EUR][1000 genomes]
rs332784	0.84[EUR][1000 genomes]
rs332798	0.83[EUR][1000 genomes]
rs332806	0.86[AFR][1000 genomes]
rs333422	0.85[AFR][1000 genomes]
rs333423	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs333437	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs333438	0.84[AFR][1000 genomes]
rs333452	0.86[AFR][1000 genomes]
rs333453	0.88[EUR][1000 genomes]
rs333454	0.88[AFR][1000 genomes]
rs333471	0.85[EUR][1000 genomes]
rs35425383	0.87[ASN][1000 genomes]
rs395109	0.85[AFR][1000 genomes]
rs399530	0.82[AFR][1000 genomes]
rs411665	0.88[AFR][1000 genomes]
rs41266050	0.97[ASN][1000 genomes]
rs4233181	0.87[ASN][1000 genomes]
rs4451598	0.88[AFR][1000 genomes]
rs458242	0.84[AFR][1000 genomes]
rs459078	0.83[EUR][1000 genomes]
rs4651015	0.87[ASN][1000 genomes]
rs4651016	0.87[ASN][1000 genomes]
rs4651019	0.87[ASN][1000 genomes]
rs4652365	0.87[ASN][1000 genomes]
rs4652422	0.87[ASN][1000 genomes]
rs4652425	0.87[ASN][1000 genomes]
rs4652460	0.87[ASN][1000 genomes]
rs4652494	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4652500	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4652511	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4652512	0.87[ASN][1000 genomes]
rs4652513	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4652669	0.85[AFR][1000 genomes]
rs467437	0.84[AFR][1000 genomes]
rs5015737	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55748748	0.97[ASN][1000 genomes]
rs55945681	0.88[AFR][1000 genomes]
rs56148594	0.87[ASN][1000 genomes]
rs56200626	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56213002	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56292878	0.89[EUR][1000 genomes]
rs56407387	0.87[ASN][1000 genomes]
rs57512497	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57953555	0.87[ASN][1000 genomes]
rs58750544	0.87[ASN][1000 genomes]
rs60409344	0.82[ASN][1000 genomes]
rs61218633	0.82[ASN][1000 genomes]
rs61624206	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6656925	0.87[ASN][1000 genomes]
rs6658315	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6663959	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6665535	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6667107	0.88[AFR][1000 genomes]
rs6668096	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6674239	0.87[ASN][1000 genomes]
rs6677262	0.87[ASN][1000 genomes]
rs6677874	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs6681970	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6682070	0.95[ASN][1000 genomes]
rs6682997	0.87[ASN][1000 genomes]
rs6684688	0.87[ASN][1000 genomes]
rs6689153	0.85[AFR][1000 genomes]
rs6689327	0.87[ASN][1000 genomes]
rs6689589	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6691118	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6692173	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6696945	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6699142	0.82[ASN][1000 genomes]
rs6699697	0.87[ASN][1000 genomes]
rs6701534	0.82[ASN][1000 genomes]
rs6701619	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6701911	0.87[ASN][1000 genomes]
rs72713537	0.87[ASN][1000 genomes]
rs72713540	0.87[ASN][1000 genomes]
rs72713553	0.82[ASN][1000 genomes]
rs72713583	0.87[ASN][1000 genomes]
rs72713584	0.87[ASN][1000 genomes]
rs72713586	0.87[ASN][1000 genomes]
rs72713591	0.87[ASN][1000 genomes]
rs72713601	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72713602	0.87[ASN][1000 genomes]
rs72715204	0.87[ASN][1000 genomes]
rs72715216	0.81[EUR][1000 genomes]
rs72715218	0.97[ASN][1000 genomes]
rs72715224	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72715226	0.92[ASN][1000 genomes]
rs72715237	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74126805	0.87[ASN][1000 genomes]
rs74128393	0.87[ASN][1000 genomes]
rs7413513	0.87[ASN][1000 genomes]
rs7414200	0.83[AFR][1000 genomes]
rs7515116	0.87[ASN][1000 genomes]
rs7516353	0.81[AFR][1000 genomes]
rs7522253	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7530265	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7535845	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7536102	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7536987	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7537823	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7542775	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7550472	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7554728	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs909533	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs926327	0.87[ASN][1000 genomes]
rs926349	0.87[ASN][1000 genomes]
rs969472	0.87[ASN][1000 genomes]
rs9729907	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9730220	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010069	chr1:174215293-174539512	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1014637	chr1:174265631-174826765	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv535208	chr1:174265631-174826765	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1014753	chr1:174271770-174694838	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv872555	chr1:174343705-174565720	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv2755184	chr1:174388343-174970343	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
7	nsv1007667	chr1:174438778-174556953	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1009056	chr1:174457532-174549665	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv999295	chr1:174457532-174596961	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv534381	chr1:174468168-174656796	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv548195	chr1:174469002-174519276	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv2757762	chr1:174469281-174569776	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv2758979	chr1:174469281-174569776	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7554740	RABGAP1L	cis	Esophagus Muscularis	GTEx

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174499200-174514200	Weak transcription	Left Ventricle	heart
2	chr1:174504600-174514200	Weak transcription	Ovary	ovary
3	chr1:174506600-174515600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr1:174507200-174514200	Weak transcription	GM12878-XiMat	blood

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