Variant report

Variant	rs72753946
Chromosome Location	chr15:83422419-83422420
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:83417832..83422548-chr15:83476028..83480956,9	K562	blood:
2	chr15:83417361..83424147-chr15:83476165..83481050,26	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FSD2-1	chr15:83421663-83422989	NONHSAT047866
2	lnc-WHAMM-2	chr15:83421636-83425960	ENSG00000252690.2

Variant related genes	Relation type
ENSG00000156232	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs55698109	0.91[EUR][1000 genomes]
rs55700126	0.91[EUR][1000 genomes]
rs55732481	0.91[EUR][1000 genomes]
rs55765708	0.91[EUR][1000 genomes]
rs55769553	0.91[EUR][1000 genomes]
rs55898630	0.91[EUR][1000 genomes]
rs56144034	0.91[EUR][1000 genomes]
rs56261932	0.91[EUR][1000 genomes]
rs56402538	0.91[EUR][1000 genomes]
rs72751631	0.91[EUR][1000 genomes]
rs72751636	0.91[EUR][1000 genomes]
rs72751640	0.91[EUR][1000 genomes]
rs72751642	0.91[EUR][1000 genomes]
rs72751644	0.91[EUR][1000 genomes]
rs72751649	0.91[EUR][1000 genomes]
rs72751653	0.91[EUR][1000 genomes]
rs72751654	0.91[EUR][1000 genomes]
rs72751658	0.91[EUR][1000 genomes]
rs72751659	0.91[EUR][1000 genomes]
rs72751663	0.91[EUR][1000 genomes]
rs72751664	0.91[EUR][1000 genomes]
rs72751669	0.91[EUR][1000 genomes]
rs72751670	0.91[EUR][1000 genomes]
rs72751671	0.91[EUR][1000 genomes]
rs72751674	0.91[EUR][1000 genomes]
rs72751678	0.91[EUR][1000 genomes]
rs72751679	0.91[EUR][1000 genomes]
rs72751681	0.91[EUR][1000 genomes]
rs72751682	0.91[EUR][1000 genomes]
rs72751683	0.91[EUR][1000 genomes]
rs72751685	0.91[EUR][1000 genomes]
rs72751688	0.91[EUR][1000 genomes]
rs72751689	0.91[EUR][1000 genomes]
rs72751692	0.91[EUR][1000 genomes]
rs72751697	0.91[EUR][1000 genomes]
rs72751698	0.91[EUR][1000 genomes]
rs72751699	0.91[EUR][1000 genomes]
rs72751701	0.91[EUR][1000 genomes]
rs72753903	0.91[EUR][1000 genomes]
rs72753904	0.91[EUR][1000 genomes]
rs72753907	0.91[EUR][1000 genomes]
rs72753912	0.91[EUR][1000 genomes]
rs72753917	0.91[EUR][1000 genomes]
rs72753920	0.91[EUR][1000 genomes]
rs72753923	0.91[EUR][1000 genomes]
rs72753927	0.91[EUR][1000 genomes]
rs72753928	0.91[EUR][1000 genomes]
rs72753929	0.91[EUR][1000 genomes]
rs72753933	0.91[EUR][1000 genomes]
rs72753936	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72753937	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72753940	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72753941	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72753942	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72753949	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72753951	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72753953	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72753954	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72753960	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73443047	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054171	chr15:83237514-83468077	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv1036950	chr15:83245326-83461261	Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Active TSS Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv1036462	chr15:83245326-83472507	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	esv34318	chr15:83283555-83453495	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
5	nsv1039021	chr15:83283994-83431548	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
6	esv3493740	chr15:83295897-83458896	Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
7	esv3493739	chr15:83296247-83458846	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
8	esv3493738	chr15:83296905-83457854	Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
9	esv3493742	chr15:83296993-83457792	Weak transcription Active TSS Bivalent Enhancer Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
10	nsv817702	chr15:83299461-83457424	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
11	esv3413738	chr15:83390947-83422928	Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
12	nsv469557	chr15:83417763-83560629	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
13	nsv482340	chr15:83417763-83560629	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
14	nsv471687	chr15:83417764-83560629	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83420000-83426600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:83420200-83423400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:83420200-83427000	Weak transcription	Gastric	stomach
4	chr15:83420200-83433400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:83420400-83424400	Weak transcription	Fetal Heart	heart
6	chr15:83420400-83427000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr15:83420400-83427000	Weak transcription	Esophagus	oesophagus
8	chr15:83420400-83436400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:83420600-83422600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr15:83420600-83423200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr15:83420600-83423200	Weak transcription	Placenta	Placenta
12	chr15:83420600-83423200	Weak transcription	Left Ventricle	heart
13	chr15:83420600-83423200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:83420600-83423200	Weak transcription	Osteobl	bone
15	chr15:83420600-83423400	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr15:83420600-83423400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr15:83420600-83423400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:83420600-83423400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:83420600-83423400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:83420600-83423400	Weak transcription	Brain Substantia Nigra	brain
21	chr15:83420600-83423400	Weak transcription	Fetal Kidney	kidney
22	chr15:83420600-83423400	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr15:83420600-83423400	Weak transcription	NH-A	brain
24	chr15:83420600-83423400	Weak transcription	NHDF-Ad	bronchial
25	chr15:83420600-83423800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:83420600-83424000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr15:83420600-83426400	Weak transcription	Thymus	Thymus
28	chr15:83420600-83429000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr15:83420800-83422600	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr15:83420800-83422800	Weak transcription	Primary B cells from peripheral blood	blood
31	chr15:83420800-83423200	Weak transcription	HMEC	breast
32	chr15:83420800-83423400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr15:83420800-83423400	Weak transcription	Brain Hippocampus Middle	brain
34	chr15:83420800-83423400	Weak transcription	Lung	lung
35	chr15:83420800-83423400	Weak transcription	Spleen	Spleen
36	chr15:83420800-83423600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr15:83420800-83423600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:83420800-83427000	Weak transcription	Aorta	Aorta
39	chr15:83420800-83427000	Weak transcription	Right Ventricle	heart
40	chr15:83420800-83431400	Weak transcription	Stomach Mucosa	stomach
41	chr15:83421000-83422800	Weak transcription	NHLF	lung
42	chr15:83421000-83424000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr15:83421000-83428000	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr15:83421000-83428200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr15:83421000-83428400	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr15:83421000-83428400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr15:83421000-83428600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr15:83421000-83429400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
49	chr15:83421200-83422600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:83421200-83423400	Weak transcription	Fetal Brain Female	brain

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