Variant report

Variant	rs2509053
Chromosome Location	chr11:84708782-84708783
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CREBZF-4	chr11:84708270-84708812	NONHSAT023431

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10501586	0.87[LWK][hapmap];1.00[MKK][hapmap];0.92[YRI][hapmap]
rs10792792	1.00[CEU][hapmap]
rs10792794	0.96[CEU][hapmap]
rs10898336	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10898343	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs1227842	0.88[CEU][hapmap]
rs1227843	0.92[CEU][hapmap];0.92[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1237921	0.87[CEU][hapmap];1.00[YRI][hapmap]
rs1238728	0.88[CEU][hapmap]
rs1940122	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs1940123	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs1940133	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2155410	1.00[CEU][hapmap];0.95[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2155411	1.00[CEU][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs2155412	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2252376	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2253167	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2444254	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2444255	0.92[CEU][hapmap];0.92[YRI][hapmap]
rs2453151	0.88[CEU][hapmap]
rs2509056	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3862779	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs490286	0.84[CEU][hapmap]
rs4944507	1.00[MKK][hapmap]
rs527389	0.92[CEU][hapmap];0.98[GIH][hapmap];0.87[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.84[YRI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs542892	0.92[CEU][hapmap];0.85[TSI][hapmap]
rs543740	0.92[CEU][hapmap];0.88[GIH][hapmap];0.91[TSI][hapmap];0.84[YRI][hapmap];0.84[EUR][1000 genomes]
rs555156	0.88[CEU][hapmap];0.83[TSI][hapmap]
rs555259	0.88[CEU][hapmap];0.81[GIH][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes]
rs560214	0.88[CEU][hapmap];0.81[GIH][hapmap];0.87[TSI][hapmap]
rs560587	0.83[EUR][1000 genomes]
rs567594	0.88[CEU][hapmap];0.84[YRI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs568641	0.92[CEU][hapmap];0.88[GIH][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs573650	0.94[CEU][hapmap];0.84[YRI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs574671	0.92[CEU][hapmap];1.00[YRI][hapmap]
rs575189	0.92[CEU][hapmap];1.00[YRI][hapmap]
rs577950	0.92[CEU][hapmap]
rs578782	0.88[CEU][hapmap]
rs581943	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs582884	0.92[CEU][hapmap];0.93[GIH][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes]
rs589093	0.84[CEU][hapmap]
rs592166	0.88[CEU][hapmap];0.86[GIH][hapmap];0.83[MKK][hapmap];0.84[TSI][hapmap]
rs592622	0.92[CEU][hapmap];0.86[CHB][hapmap]
rs593800	0.88[CEU][hapmap]
rs594122	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs595435	0.88[CEU][hapmap];0.81[GIH][hapmap];0.87[TSI][hapmap]
rs596556	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs597592	1.00[CEU][hapmap];0.86[CHB][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs601375	0.84[CEU][hapmap]
rs605652	0.90[CEU][hapmap]
rs607864	0.88[CEU][hapmap]
rs613265	0.96[CEU][hapmap];1.00[GIH][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap]
rs613315	0.92[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs617231	0.92[CEU][hapmap];0.84[GIH][hapmap];0.90[MKK][hapmap];0.84[TSI][hapmap]
rs621007	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs625495	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs626531	0.92[CEU][hapmap]
rs626700	0.88[CEU][hapmap];0.86[CHB][hapmap]
rs630948	0.92[CEU][hapmap];0.92[YRI][hapmap]
rs631370	0.84[CEU][hapmap];0.86[GIH][hapmap];0.84[MKK][hapmap];0.82[TSI][hapmap]
rs632351	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs635032	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]
rs641655	0.88[CEU][hapmap];0.81[GIH][hapmap];0.87[TSI][hapmap]
rs641958	0.92[CEU][hapmap];0.92[YRI][hapmap]
rs643891	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]
rs646324	0.87[CEU][hapmap];1.00[YRI][hapmap]
rs646502	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs648506	0.80[CEU][hapmap];0.88[CHB][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs649468	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs650374	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs651661	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs652830	0.92[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs658749	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6592215	1.00[CEU][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs6592216	1.00[CEU][hapmap]
rs6592220	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6592221	1.00[CEU][hapmap];0.95[MEX][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6592222	1.00[CEU][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs660274	0.88[CEU][hapmap]
rs666735	0.84[CEU][hapmap]
rs670998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs675160	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs675217	0.92[CEU][hapmap];0.84[YRI][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs675255	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs679745	0.84[CEU][hapmap];0.81[GIH][hapmap]
rs685294	0.96[CEU][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs686009	0.88[CEU][hapmap]
rs687695	0.92[CEU][hapmap];0.98[GIH][hapmap];0.87[LWK][hapmap];0.87[MEX][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap]
rs688329	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs689226	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs694142	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7127990	0.81[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1048051	chr11:84419442-84784233	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv541109	chr11:84419442-84784233	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv898041	chr11:84642163-84722252	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv430415	chr11:84661652-84833852	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1055097	chr11:84672444-84810441	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv975857	chr11:84707735-84708854	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1040393	chr11:84708402-84866594	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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