Variant report

Variant	rs3891644
Chromosome Location	chr17:20870494-20870495
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:36918860..36921320-chr17:20868689..20871497,2	K562	blood:

Variant related genes	Relation type
ENSG00000133104	Chromatin interaction
ENSG00000120664	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1045215	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs10512423	0.91[CHB][hapmap];0.83[ASN][1000 genomes]
rs11204325	0.84[CEU][hapmap];0.91[CHB][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11204327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11204329	1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11204331	0.81[ASN][1000 genomes]
rs11541311	0.91[CHB][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11650623	0.82[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11651078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11651500	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11652224	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11653213	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11653504	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11654801	0.91[CHB][hapmap];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11655512	0.84[CEU][hapmap];0.91[CHB][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11655985	0.81[ASN][1000 genomes]
rs11656525	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11656662	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11656837	0.89[ASN][1000 genomes]
rs11656874	0.81[ASN][1000 genomes]
rs11657155	0.81[ASN][1000 genomes]
rs11658178	0.91[CHB][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11658389	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11658671	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11658722	0.84[CEU][hapmap];0.92[CHB][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11658742	0.84[CEU][hapmap];0.92[CHB][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11658791	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11869271	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11870338	0.92[CHB][hapmap]
rs16942330	0.91[CHB][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs16962375	0.91[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16962469	0.84[CEU][hapmap];0.91[CHB][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16962470	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2009757	0.94[ASN][1000 genomes]
rs2291035	0.91[CHB][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs3785544	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4985937	0.95[EUR][1000 genomes]
rs4985938	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4985939	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4985943	0.81[ASN][1000 genomes]
rs4985944	0.84[ASN][1000 genomes]
rs62055504	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62055511	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62056764	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62056765	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62056768	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62056770	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62056771	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62056832	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62058987	0.83[ASN][1000 genomes]
rs62058990	0.83[ASN][1000 genomes]
rs62058991	0.83[ASN][1000 genomes]
rs62058993	0.81[ASN][1000 genomes]
rs716959	0.91[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7217797	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7218520	0.91[CHB][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs8079468	0.91[CHB][hapmap];0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs8080233	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9325900	0.86[ASN][1000 genomes]
rs9905095	0.91[CHB][hapmap]
rs9914432	0.84[CEU][hapmap];0.91[CHB][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9972887	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751619	chr17:20462908-20914156	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv1064365	chr17:20801739-20890716	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv949097	chr17:20801739-21406355	Genic enhancers Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
4	nsv574597	chr17:20802778-20872331	Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv527161	chr17:20814766-20872331	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv457706	chr17:20814766-20872331	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv574598	chr17:20814766-20872331	Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv529759	chr17:20839079-21529632	Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
9	nsv2006	chr17:20846763-20892730	Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv960441	chr17:20870008-20872778	Weak transcription Enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:20848200-20872200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr17:20848200-20896600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr17:20852800-20882600	Weak transcription	K562	blood
4	chr17:20859000-20881800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr17:20862600-20890800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr17:20866000-20886600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr17:20866200-20871200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr17:20866200-20872800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr17:20866200-20876200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr17:20866800-20871000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr17:20868000-20884800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr17:20869000-20870600	Strong transcription	HepG2	liver
13	chr17:20869600-20880400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr17:20869800-20870600	Enhancers	HSMMtube	muscle
15	chr17:20869800-20870800	Enhancers	Spleen	Spleen
16	chr17:20869800-20871000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr17:20869800-20872600	Enhancers	Primary B cells from peripheral blood	blood
18	chr17:20869800-20874800	Enhancers	GM12878-XiMat	blood
19	chr17:20870000-20871200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr17:20870000-20872400	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr17:20870000-20873400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr17:20870000-20883000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr17:20870200-20870600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr17:20870200-20870800	Enhancers	Primary T cells fromperipheralblood	blood
25	chr17:20870200-20870800	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr17:20870200-20870800	Enhancers	Lung	lung
27	chr17:20870400-20870800	Enhancers	Placenta	Placenta
28	chr17:20870400-20871200	Enhancers	Primary hematopoietic stem cells	blood
29	chr17:20870400-20872200	Enhancers	Fetal Muscle Leg	muscle
30	chr17:20870400-20874600	Enhancers	Primary B cells from cord blood	blood

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