Variant report

Variant	rs1937787
Chromosome Location	chr1:80839278-80839279
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ELTD1-7	chr1:80839049-80839443	XLOC_000882

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10874123	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10874124	0.92[EUR][1000 genomes]
rs11163001	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12057358	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12069728	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12073845	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12074207	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12075452	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12075726	0.84[AMR][1000 genomes]
rs12076974	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12077472	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12083515	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12084568	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12087638	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12087646	0.82[AMR][1000 genomes]
rs12087722	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12088070	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12088284	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12088287	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1365753	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17488710	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17488724	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1966550	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2389016	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2389017	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28813117	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35020936	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3856038	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4514202	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56794969	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59355246	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs66579741	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs66607038	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6670504	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6670706	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs66988543	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs67148358	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs67451257	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs67981315	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673699	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72949518	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7555345	0.80[AMR][1000 genomes];0.85[EUR][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	nsv1012286	chr1:80057078-81005153	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv535018	chr1:80057078-81005153	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1000792	chr1:80076146-81015283	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv546661	chr1:80656114-81156849	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1011060	chr1:80745999-80972049	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv871859	chr1:80752283-80908148	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv546662	chr1:80809034-80870692	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv999379	chr1:80810523-80843846	Enhancers Weak transcription Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
9	esv2754256	chr1:80811353-80992195	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv871451	chr1:80814734-80908148	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv546663	chr1:80838880-80909417	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv462272	chr1:80839278-80909417	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv546664	chr1:80839278-80909417	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:80832200-80840000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:80839000-80843000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr1:80839200-80842000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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