Variant report

Variant	rs56823591
Chromosome Location	chr12:29194923-29194924
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAR2-1	chr12:29194801-29194941	XLOC_009696
2	lnc-FAR2-1	chr12:29194801-29194941	XLOC_009696

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11049981	0.83[ASN][1000 genomes]
rs1498795	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17653960	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17704968	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1960925	0.83[EUR][1000 genomes]
rs55951138	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56014476	0.81[EUR][1000 genomes]
rs56019958	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56078711	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57629099	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58373348	0.81[EUR][1000 genomes]
rs59190473	0.81[EUR][1000 genomes]
rs60718845	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61641706	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7295808	0.81[EUR][1000 genomes]
rs7301103	0.81[EUR][1000 genomes]
rs7310637	0.81[EUR][1000 genomes]
rs7315447	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74076209	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74076219	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74076226	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74076482	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs74076486	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs74076737	0.81[EUR][1000 genomes]
rs74076740	0.81[EUR][1000 genomes]
rs7957091	0.81[EUR][1000 genomes]
rs7966315	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7978880	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9651837	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532233	chr12:29009388-29496179	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv995123	chr12:29095272-29571558	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	esv2758301	chr12:29110782-29289849	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2759888	chr12:29110782-29289849	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv1802947	chr12:29194445-29197813	Active TSS Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:29191400-29197200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr12:29191600-29196000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr12:29191800-29197000	Enhancers	NHLF	lung
4	chr12:29192600-29195600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr12:29193200-29196000	Weak transcription	Fetal Stomach	stomach
6	chr12:29193800-29195000	Enhancers	Muscle Satellite Cultured Cells	--
7	chr12:29194000-29195000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr12:29194200-29195400	Enhancers	HSMMtube	muscle
9	chr12:29194400-29195000	Active TSS	Rectal Mucosa Donor 29	rectum
10	chr12:29194400-29195000	Enhancers	HMEC	breast
11	chr12:29194400-29195000	Enhancers	NHEK	skin
12	chr12:29194400-29195200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr12:29194400-29195200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr12:29194400-29195200	Enhancers	Fetal Kidney	kidney
15	chr12:29194400-29195200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
16	chr12:29194400-29195200	Enhancers	Hela-S3	cervix
17	chr12:29194400-29195600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr12:29194400-29195600	Flanking Active TSS	NHDF-Ad	bronchial
19	chr12:29194400-29196400	Enhancers	HSMM	muscle
20	chr12:29194400-29197000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr12:29194400-29198000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr12:29194600-29195000	Active TSS	Duodenum Mucosa	Duodenum
23	chr12:29194600-29196200	Enhancers	NH-A	brain
24	chr12:29194800-29195200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr12:29194800-29195200	Flanking Active TSS	Fetal Intestine Large	intestine
26	chr12:29194800-29195200	Flanking Active TSS	Fetal Intestine Small	intestine
27	chr12:29194800-29195200	Flanking Active TSS	Osteobl	bone
28	chr12:29194800-29195400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr12:29194800-29195600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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