Variant report

Variant	rs690538
Chromosome Location	chr15:53495605-53495606
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10163134	0.86[ASN][1000 genomes]
rs10775152	0.86[ASN][1000 genomes]
rs10851535	0.86[ASN][1000 genomes]
rs10851536	0.86[ASN][1000 genomes]
rs11070964	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11070965	0.86[ASN][1000 genomes]
rs11070966	0.80[ASN][1000 genomes]
rs11632242	0.86[ASN][1000 genomes]
rs11632523	0.86[ASN][1000 genomes]
rs11633541	0.86[ASN][1000 genomes]
rs11857258	0.86[ASN][1000 genomes]
rs1211489	0.87[ASN][1000 genomes]
rs12593169	0.86[ASN][1000 genomes]
rs12901316	0.86[ASN][1000 genomes]
rs12908835	0.86[ASN][1000 genomes]
rs12916160	0.86[ASN][1000 genomes]
rs12916317	0.86[ASN][1000 genomes]
rs1317100	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1356861	0.86[ASN][1000 genomes]
rs1520413	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17660118	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1911687	0.86[ASN][1000 genomes]
rs2048168	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2661576	0.95[ASN][1000 genomes]
rs4109296	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4109297	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4109298	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4265756	0.93[ASN][1000 genomes]
rs4545759	0.86[ASN][1000 genomes]
rs4551981	0.86[ASN][1000 genomes]
rs4577024	0.86[ASN][1000 genomes]
rs4774653	0.83[ASN][1000 genomes]
rs4774657	0.93[ASN][1000 genomes]
rs4776119	0.86[ASN][1000 genomes]
rs4776120	0.86[ASN][1000 genomes]
rs4776121	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs477800	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs479747	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs482541	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs482662	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs483479	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs493218	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs500895	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs508421	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs511352	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs515672	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs515943	0.90[ASN][1000 genomes]
rs516920	0.86[ASN][1000 genomes]
rs523116	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs524607	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs534887	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs535851	0.99[ASN][1000 genomes]
rs545164	0.93[ASN][1000 genomes]
rs549391	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs551494	0.93[ASN][1000 genomes]
rs553000	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs558995	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs559926	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs565238	0.82[ASN][1000 genomes]
rs566369	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs566855	0.81[ASN][1000 genomes]
rs572221	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs577263	0.86[ASN][1000 genomes]
rs6493613	0.87[ASN][1000 genomes]
rs6493614	0.86[ASN][1000 genomes]
rs6493615	0.86[ASN][1000 genomes]
rs6493617	0.86[ASN][1000 genomes]
rs689652	0.99[ASN][1000 genomes]
rs689818	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs690264	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs690271	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs690283	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs690379	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs690399	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs690449	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7167895	0.86[ASN][1000 genomes]
rs7171938	0.86[ASN][1000 genomes]
rs7172105	0.86[ASN][1000 genomes]
rs8027357	0.86[ASN][1000 genomes]
rs8027387	0.86[ASN][1000 genomes]
rs8027674	0.85[ASN][1000 genomes]
rs8032350	0.86[ASN][1000 genomes]
rs8042542	0.86[ASN][1000 genomes]
rs8043044	0.86[ASN][1000 genomes]
rs9284297	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs931916	0.86[ASN][1000 genomes]
rs931917	0.86[ASN][1000 genomes]
rs931918	0.86[ASN][1000 genomes]
rs931919	0.86[ASN][1000 genomes]
rs9920052	0.85[ASN][1000 genomes]
rs9920871	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3343986	chr15:53284440-53571936	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1037630	chr15:53324645-53708925	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1051634	chr15:53459129-53565627	Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3385784	chr15:53492461-53521900	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53489000-53496000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr15:53490400-53495800	Weak transcription	HepG2	liver
3	chr15:53493200-53497200	Enhancers	Dnd41	blood
4	chr15:53493400-53496800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr15:53493400-53497000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr15:53493800-53496600	Enhancers	Fetal Thymus	thymus
7	chr15:53493800-53496600	Enhancers	Thymus	Thymus
8	chr15:53493800-53497400	Enhancers	Primary hematopoietic stem cells	blood
9	chr15:53495000-53496400	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr15:53495000-53496400	Enhancers	H1 Cell Line	embryonic stem cell
11	chr15:53495000-53496400	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr15:53495000-53496400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:53495000-53498800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr15:53495200-53495800	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr15:53495200-53496200	Enhancers	Pancreas	Pancrea
16	chr15:53495200-53496400	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr15:53495200-53496400	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr15:53495200-53496600	Enhancers	Psoas Muscle	Psoas
19	chr15:53495200-53503000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:53495600-53496000	Enhancers	Liver	Liver
21	chr15:53495600-53496200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr15:53495600-53496200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:53495600-53496200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle

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