Variant report

Variant	rs677985
Chromosome Location	chr6:160619906-160619907
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10455868	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1067741	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1086571	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1086572	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1086574	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs474244	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs476064	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs477900	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs543006	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925741	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs719631	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs791174	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs791176	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs791181	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs791182	0.83[EUR][1000 genomes]
rs791184	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs791186	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs791187	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs791188	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs791190	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs791195	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9365136	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[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	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv35098	chr6:160422589-161070870	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2757197	chr6:160432331-161070870	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv818463	chr6:160435569-161025547	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1030746	chr6:160592321-160867031	Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv538493	chr6:160592321-160867031	Weak transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs677985	SLC22A2	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:160610000-160623600	Weak transcription	Aorta	Aorta
2	chr6:160619200-160620600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:160619200-160620800	Enhancers	Fetal Intestine Small	intestine
4	chr6:160619400-160620200	Active TSS	A549	lung
5	chr6:160619400-160620400	Enhancers	HepG2	liver
6	chr6:160619400-160620800	Enhancers	Fetal Intestine Large	intestine
7	chr6:160619600-160620400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:160619800-160620000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
9	chr6:160619800-160620000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
10	chr6:160619800-160620200	Enhancers	Duodenum Mucosa	Duodenum
11	chr6:160619800-160620400	Enhancers	Fetal Kidney	kidney
12	chr6:160619800-160620800	Enhancers	Stomach Mucosa	stomach
13	chr6:160619800-160621200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:160619800-160621800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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