Variant report

Variant	rs12534489
Chromosome Location	chr7:150126772-150126773
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:150125696..150128061-chr7:150128345..150131793,4	K562	blood:
2	chr7:150125990..150127951-chr7:150128739..150131315,4	K562	blood:
3	chr7:150120416..150122840-chr7:150125957..150128755,2	K562	blood:
4	chr7:150003788..150006557-chr7:150126189..150128283,2	K562	blood:
5	chr7:150101612..150104184-chr7:150124782..150128046,4	K562	blood:
6	chr7:150126141..150128325-chr7:150150954..150153217,2	K562	blood:
7	chr7:150124983..150127260-chr7:150127633..150130251,3	MCF-7	breast:
8	chr7:150014370..150017313-chr7:150124547..150126790,2	K562	blood:
9	chr7:150016741..150020223-chr7:150126057..150129165,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000127399	Chromatin interaction
ENSG00000242258	Chromatin interaction
ENSG00000196456	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10231372	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10238456	0.87[EUR][1000 genomes]
rs10257386	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10271549	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10271666	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10952258	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11760255	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11770221	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12154828	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12533667	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12533686	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12534277	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12536327	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12538227	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12538814	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12538995	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12703064	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12703065	0.80[AFR][1000 genomes]
rs12703066	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13237570	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2030680	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34478979	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4725898	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55698450	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58226247	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][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	nsv1034409	chr7:149844639-150447071	Flanking Active TSS Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv608990	chr7:149961274-150707488	Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv1015582	chr7:149967986-150285104	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
4	nsv1017368	chr7:150016952-150655773	Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	nsv539195	chr7:150016952-150655773	Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	esv1819714	chr7:150055837-150154944	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:150104400-150131600	Weak transcription	Right Atrium	heart
2	chr7:150110200-150142200	Weak transcription	Gastric	stomach
3	chr7:150124200-150126800	Enhancers	Fetal Thymus	thymus
4	chr7:150124400-150126800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr7:150124400-150126800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr7:150124400-150126800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr7:150124400-150126800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr7:150124400-150126800	Enhancers	Thymus	Thymus
9	chr7:150124600-150127800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr7:150124600-150128600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr7:150124800-150127800	Enhancers	Spleen	Spleen
12	chr7:150125000-150127200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr7:150125400-150126800	Enhancers	Fetal Muscle Trunk	muscle
14	chr7:150125600-150126800	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr7:150125600-150126800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr7:150125600-150126800	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr7:150125600-150126800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr7:150125600-150126800	Enhancers	NH-A	brain
19	chr7:150125600-150127000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr7:150125600-150127000	Enhancers	Rectal Smooth Muscle	rectum
21	chr7:150125600-150127400	Enhancers	HSMMtube	muscle
22	chr7:150125800-150126800	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr7:150126000-150126800	Enhancers	Brain Hippocampus Middle	brain
24	chr7:150126000-150126800	Enhancers	NHLF	lung
25	chr7:150126000-150127000	Enhancers	Duodenum Smooth Muscle	Duodenum
26	chr7:150126000-150127800	Enhancers	Colonic Mucosa	Colon
27	chr7:150126000-150127800	Bivalent Enhancer	Stomach Smooth Muscle	stomach
28	chr7:150126000-150130200	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr7:150126200-150128200	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr7:150126400-150126800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr7:150126400-150127000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr7:150126400-150127200	Enhancers	HSMM	muscle
33	chr7:150126400-150127600	Weak transcription	NHDF-Ad	bronchial
34	chr7:150126400-150127800	Enhancers	Dnd41	blood
35	chr7:150126400-150130000	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr7:150126400-150130200	Weak transcription	Pancreas	Pancrea
37	chr7:150126400-150130800	Weak transcription	Esophagus	oesophagus
38	chr7:150126600-150127600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr7:150126600-150129000	Weak transcription	GM12878-XiMat	blood
40	chr7:150126600-150130200	Weak transcription	Primary hematopoietic stem cells	blood
41	chr7:150126600-150132600	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr7:150126600-150148000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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