Variant report

Variant	rs61016063
Chromosome Location	chr10:5857479-5857480
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:22)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:22 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:5857106-5857603	MCF-7	breast:	n/a	n/a
2	POLR2A	chr10:5852865-5857536	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr10:5857178-5857492	ECC-1	luminal epithelium:	n/a	n/a
4	POLR2A	chr10:5854191-5857525	GM12892	blood:	n/a	n/a
5	POLR2A	chr10:5854147-5859027	GM12891	blood:	n/a	n/a
6	POLR2A	chr10:5857201-5857558	MCF10A-Er-Src	breast:	n/a	n/a
7	POLR2A	chr10:5857071-5857553	GM12891	blood:	n/a	n/a
8	POLR2A	chr10:5857210-5857832	K562	blood:	n/a	n/a
9	POLR2A	chr10:5855185-5857664	K562	blood:	n/a	n/a
10	POLR2A	chr10:5857104-5857543	GM12891	blood:	n/a	n/a
11	POLR2A	chr10:5857454-5857882	MCF-7	breast:	n/a	n/a
12	POLR2A	chr10:5854182-5857522	GM12878	blood:	n/a	n/a
13	POLR2A	chr10:5857084-5857522	K562	blood:	n/a	n/a
14	POLR2A	chr10:5854462-5858661	Raji	blood:	n/a	n/a
15	POLR2A	chr10:5857096-5857526	GM12892	blood:	n/a	n/a
16	POLR2A	chr10:5856624-5857691	HepG2	liver:	n/a	n/a
17	POLR2A	chr10:5856754-5857691	Hela-S3	cervix:	n/a	n/a
18	POLR2A	chr10:5854182-5857602	GM12878	blood:	n/a	n/a
19	POLR2A	chr10:5856655-5857570	GM12878	blood:	n/a	n/a
20	POLR2A	chr10:5857382-5857508	K562	blood:	n/a	n/a
21	POLR2A	chr10:5854215-5857590	GM12892	blood:	n/a	n/a
22	POLR2A	chr10:5857132-5857512	GM12892	blood:	n/a	n/a

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:5725503..5729426-chr10:5853777..5860412,5	MCF-7	breast:
2	chr10:5853439..5857708-chr10:5926443..5936823,24	K562	blood:
3	chr10:5852473..5857853-chr10:5880942..5888645,8	MCF-7	breast:
4	chr10:5732056..5734929-chr10:5855542..5857938,2	K562	blood:
5	chr10:5851570..5858995-chr10:5881654..5887342,9	K562	blood:
6	chr10:5855633..5857899-chr8:144821553..144823070,2	MCF-7	breast:
7	chr10:5857210..5863651-chr10:5869000..5872361,6	MCF-7	breast:
8	chr10:5725239..5729489-chr10:5854026..5858186,8	K562	blood:
9	chr10:5852595..5861125-chr10:5921136..5936216,31	MCF-7	breast:
10	chr10:5810148..5812616-chr10:5855203..5857512,4	K562	blood:

No data

Variant related genes	Relation type
GDI2	TF binding region
ENSG00000134452	Chromatin interaction
ENSG00000203499	Chromatin interaction
ENSG00000057608	Chromatin interaction
ENSG00000134461	Chromatin interaction
ENSG00000108021	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10737018	0.94[EUR][1000 genomes]
rs10905029	0.89[EUR][1000 genomes]
rs10905066	0.95[EUR][1000 genomes]
rs2254067	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2380209	0.85[EUR][1000 genomes]
rs2386664	0.82[ASN][1000 genomes]
rs2669135	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2669137	0.90[EUR][1000 genomes]
rs2797486	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2797487	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2797491	0.89[EUR][1000 genomes]
rs2797493	0.91[EUR][1000 genomes]
rs2797494	0.91[EUR][1000 genomes]
rs4423100	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7900361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7907687	0.81[AMR][1000 genomes];0.95[EUR][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	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats 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	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv515935	chr10:5820394-5869839	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv549896	chr10:5820394-5880066	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5856200-5862600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:5856400-5858400	Weak transcription	HSMM	muscle
3	chr10:5856400-5859000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:5856400-5859800	Weak transcription	Esophagus	oesophagus
5	chr10:5856600-5857800	Enhancers	Primary T cells fromperipheralblood	blood
6	chr10:5856600-5858600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:5856600-5861600	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr10:5856800-5857600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr10:5856800-5857600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr10:5856800-5858400	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr10:5856800-5858400	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr10:5857000-5857800	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr10:5857000-5858000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr10:5857000-5858200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr10:5857000-5858200	Weak transcription	HMEC	breast
16	chr10:5857000-5858200	Weak transcription	HSMMtube	muscle
17	chr10:5857000-5858200	Weak transcription	NHDF-Ad	bronchial
18	chr10:5857000-5858400	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr10:5857000-5858800	Weak transcription	Thymus	Thymus
20	chr10:5857000-5858800	Weak transcription	A549	lung
21	chr10:5857000-5860800	Weak transcription	Fetal Muscle Trunk	muscle
22	chr10:5857000-5862200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr10:5857000-5863600	Enhancers	Primary B cells from cord blood	blood
24	chr10:5857000-5864200	Enhancers	Primary B cells from peripheral blood	blood
25	chr10:5857000-5866800	Weak transcription	NHLF	lung
26	chr10:5857200-5859800	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr10:5857400-5858200	Weak transcription	Primary T cells from cord blood	blood
28	chr10:5857400-5858200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr10:5857400-5858200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr10:5857400-5858200	Enhancers	GM12878-XiMat	blood
31	chr10:5857400-5858200	Weak transcription	K562	blood
32	chr10:5857400-5858800	Weak transcription	HepG2	liver
33	chr10:5857400-5859400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr10:5857400-5859800	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr10:5857400-5860000	Weak transcription	Primary hematopoietic stem cells	blood
36	chr10:5857400-5860800	Weak transcription	Spleen	Spleen
37	chr10:5857400-5861000	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr10:5857400-5871400	Weak transcription	Pancreas	Pancrea

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