Variant report

Variant	rs7202108
Chromosome Location	chr16:12854467-12854468
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SHISA9-1	chr16:12854227-12855019	ENSG00000261158.1
2	lnc-SHISA9-1	chr16:12854227-12854937	NONHSAT140631
3	lnc-SHISA9-1	chr16:12854227-12854937	NONHSAT140630

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs8044390	1.00[AMR][1000 genomes]
rs8062155	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051242	chr16:12482972-12897243	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv542749	chr16:12482972-12897243	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1035581	chr16:12516946-12863700	ZNF genes & repeats Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1051607	chr16:12522130-13347676	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv542750	chr16:12522130-13347676	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1053617	chr16:12730958-12871639	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv869284	chr16:12735729-13533462	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
8	nsv1052802	chr16:12766360-12964248	Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
9	nsv1036493	chr16:12817416-12881078	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
10	esv2751547	chr16:12817920-12882336	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
11	esv2751548	chr16:12817920-12892036	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
12	nsv1052892	chr16:12824219-12881078	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
13	nsv525286	chr16:12826785-12878592	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
14	nsv571480	chr16:12826785-12878592	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
15	nsv571481	chr16:12826785-12880446	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
16	esv2751549	chr16:12829006-12880446	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12834800-12873600	Weak transcription	Aorta	Aorta
2	chr16:12835600-12863400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr16:12835600-12865200	Weak transcription	Ovary	ovary
4	chr16:12835600-12869800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr16:12839200-12863600	Weak transcription	Fetal Intestine Large	intestine
6	chr16:12839200-12869000	Weak transcription	Primary B cells from cord blood	blood
7	chr16:12839600-12865000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr16:12839600-12873600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr16:12846800-12856200	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr16:12847600-12865000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr16:12848000-12858400	Weak transcription	Gastric	stomach
12	chr16:12848200-12857000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr16:12849200-12865000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr16:12849600-12865000	Weak transcription	Osteobl	bone
15	chr16:12850200-12876400	Weak transcription	Primary T cells from cord blood	blood
16	chr16:12850400-12864000	Weak transcription	Esophagus	oesophagus
17	chr16:12851000-12855200	Strong transcription	Primary neutrophils fromperipheralblood	blood
18	chr16:12851200-12855800	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr16:12851800-12860800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr16:12852200-12857600	Weak transcription	Left Ventricle	heart
21	chr16:12852200-12868400	Weak transcription	Adipose Nuclei	Adipose
22	chr16:12852200-12896600	Weak transcription	Right Ventricle	heart
23	chr16:12852400-12857600	Weak transcription	NH-A	brain
24	chr16:12852400-12867800	Weak transcription	Lung	lung
25	chr16:12852400-12873600	Weak transcription	Spleen	Spleen
26	chr16:12852400-12896600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr16:12852600-12857200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr16:12852600-12857600	Weak transcription	HSMM	muscle
29	chr16:12852600-12862200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr16:12852600-12868400	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr16:12852600-12870600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr16:12852600-12877600	Weak transcription	HSMMtube	muscle
33	chr16:12852800-12857400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr16:12852800-12859600	Weak transcription	HUVEC	blood vessel
35	chr16:12852800-12860200	Weak transcription	K562	blood
36	chr16:12853000-12857200	Weak transcription	Fetal Heart	heart
37	chr16:12853000-12870000	Weak transcription	GM12878-XiMat	blood
38	chr16:12853200-12863800	Weak transcription	Placenta	Placenta
39	chr16:12853400-12857400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr16:12853400-12858600	Weak transcription	Right Atrium	heart
41	chr16:12853400-12858800	Weak transcription	Liver	Liver
42	chr16:12853400-12868400	Weak transcription	Stomach Smooth Muscle	stomach
43	chr16:12853600-12855000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr16:12853800-12854600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr16:12853800-12857400	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr16:12853800-12863400	Weak transcription	Brain Angular Gyrus	brain
47	chr16:12854000-12855000	Strong transcription	HepG2	liver
48	chr16:12854200-12854600	Weak transcription	Fetal Stomach	stomach
49	chr16:12854200-12854800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr16:12854200-12855000	Strong transcription	Sigmoid Colon	Sigmoid Colon

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