Variant report

Variant	rs1938657
Chromosome Location	chr11:58010513-58010514
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-OR10Q1-2	chr11:58009515-58010569	NONHSAT021466

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10750894	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10750895	0.83[ASN][1000 genomes]
rs10750898	0.81[ASN][1000 genomes]
rs10792159	0.91[ASN][1000 genomes]
rs10792165	0.81[ASN][1000 genomes]
rs10896736	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10896738	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10896742	0.89[ASN][1000 genomes]
rs10896749	0.83[ASN][1000 genomes]
rs10896755	0.81[ASN][1000 genomes]
rs10896760	0.81[ASN][1000 genomes]
rs10896761	0.81[ASN][1000 genomes]
rs11229333	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11229353	0.83[ASN][1000 genomes]
rs11229355	0.83[ASN][1000 genomes]
rs11229365	0.83[ASN][1000 genomes]
rs11229366	0.83[ASN][1000 genomes]
rs1938637	0.81[ASN][1000 genomes]
rs1938646	0.83[ASN][1000 genomes]
rs1938647	0.83[ASN][1000 genomes]
rs1938658	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1938662	0.83[ASN][1000 genomes]
rs1938663	0.83[ASN][1000 genomes]
rs1938664	0.83[ASN][1000 genomes]
rs2000486	0.83[ASN][1000 genomes]
rs2226414	0.83[ASN][1000 genomes]
rs3887001	0.83[ASN][1000 genomes]
rs4085405	0.81[ASN][1000 genomes]
rs4127345	0.92[ASN][1000 genomes]
rs4127346	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4127348	0.83[ASN][1000 genomes]
rs4127353	0.81[ASN][1000 genomes]
rs4288769	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4323891	0.81[ASN][1000 genomes]
rs4439529	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4439530	0.82[ASN][1000 genomes]
rs4544018	0.82[ASN][1000 genomes]
rs4561231	0.81[ASN][1000 genomes]
rs4611223	0.81[ASN][1000 genomes]
rs4611224	0.83[ASN][1000 genomes]
rs61902844	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6591469	0.83[ASN][1000 genomes]
rs7101864	0.85[ASN][1000 genomes]
rs7102222	0.83[ASN][1000 genomes]
rs7102784	0.91[ASN][1000 genomes]
rs7104814	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7110266	0.83[ASN][1000 genomes]
rs7117244	0.83[ASN][1000 genomes]
rs7127035	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs734776	0.81[ASN][1000 genomes]
rs754681	0.81[ASN][1000 genomes]
rs7926741	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv897589	chr11:57623815-58052357	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv1039453	chr11:57924680-58119650	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv541051	chr11:57924680-58119650	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv975932	chr11:58009747-58010558	Inactive region	lncRNA	n/a	inside rSNPs	diseases

No data

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

No data

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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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