Variant report

Variant	rs13200786
Chromosome Location	chr6:4087949-4087950
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf201-4	chr6:4087631-4087960	NONHSAT107297

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11751209	1.00[EUR][1000 genomes]
rs11753085	1.00[EUR][1000 genomes]
rs11759470	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13196680	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13197380	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13199593	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13200044	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203009	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13204803	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13209091	0.98[EUR][1000 genomes]
rs13209389	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13209492	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13210029	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13210391	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13220866	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35304946	1.00[EUR][1000 genomes]
rs35686761	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs715165	0.81[AMR][1000 genomes]
rs71547255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9328218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[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	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv462615	chr6:4052383-4096678	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv600860	chr6:4052383-4096678	Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1030104	chr6:4062894-4240269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4079400-4092000	Weak transcription	Right Atrium	heart
2	chr6:4085000-4088800	Weak transcription	Fetal Intestine Large	intestine
3	chr6:4085200-4088400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:4085200-4088800	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:4086400-4090200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:4086800-4089800	Enhancers	Stomach Mucosa	stomach
7	chr6:4087600-4088600	Enhancers	Gastric	stomach
8	chr6:4087800-4088800	Weak transcription	Pancreas	Pancrea

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