Variant report

Variant	rs1323659
Chromosome Location	chr10:5916926-5916927
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:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:5900574..5904581-chr10:5915498..5917338,4	MCF-7	breast:
2	chr10:5725838..5728251-chr10:5915424..5916991,2	MCF-7	breast:
3	chr10:5853596..5857884-chr10:5911550..5919142,12	MCF-7	breast:
4	chr10:5910241..5913072-chr10:5913979..5917301,3	MCF-7	breast:
5	chr10:5853453..5857248-chr10:5914833..5919853,7	K562	blood:
6	chr10:5853075..5856620-chr10:5914833..5920117,6	K562	blood:
7	chr10:5915609..5918597-chr10:5924591..5926431,2	K562	blood:
8	chr10:5853771..5858349-chr10:5915568..5920799,8	MCF-7	breast:
9	chr10:5913606..5917218-chr10:5929180..5932208,4	MCF-7	breast:
10	chr10:5729799..5732173-chr10:5916064..5918790,2	MCF-7	breast:
11	chr10:5913737..5922370-chr10:5922961..5932189,19	K562	blood:
12	chr10:5912111..5919800-chr10:5923492..5927477,10	MCF-7	breast:
13	chr10:5900731..5902492-chr10:5915568..5917160,2	K562	blood:
14	chr10:5850191..5852972-chr10:5915096..5916950,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FBXO18-1	chr10:5916643-5917392	NONHSAT011189

No data

Variant related genes	Relation type
ENSG00000057608	Chromatin interaction
ENSG00000272764	Chromatin interaction
ENSG00000134461	Chromatin interaction
ENSG00000240180	Chromatin interaction
ENSG00000134452	Chromatin interaction
ENSG00000108021	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1052420	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs1707228	1.00[MEX][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2274030	0.81[CEU][hapmap]
rs2387148	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2669124	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs2669127	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2761269	0.80[EUR][1000 genomes]
rs2942348	0.85[EUR][1000 genomes]
rs2985042	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap]
rs2985043	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs2985044	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs584000	0.82[EUR][1000 genomes]
rs587620	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs587655	0.85[EUR][1000 genomes]
rs593026	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs596156	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs599394	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs600706	0.80[CEU][hapmap];0.85[EUR][1000 genomes]
rs608197	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs609269	0.82[CEU][hapmap]
rs610335	0.85[EUR][1000 genomes]
rs615879	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs617165	0.93[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs622252	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs622488	0.85[EUR][1000 genomes]
rs626040	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[EUR][1000 genomes]
rs627303	0.82[EUR][1000 genomes]
rs628175	0.83[EUR][1000 genomes]
rs628219	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs628234	0.84[EUR][1000 genomes]
rs628844	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs631947	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs632639	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs641034	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs644474	0.82[CEU][hapmap]
rs646406	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs646490	0.81[CEU][hapmap];1.00[MEX][hapmap]
rs661411	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs662701	0.93[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs664577	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs664842	0.85[EUR][1000 genomes]
rs666831	0.85[CEU][hapmap]
rs673496	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs673678	0.85[EUR][1000 genomes]
rs675416	0.81[CEU][hapmap];1.00[MEX][hapmap]
rs679610	0.82[CEU][hapmap]
rs682555	0.93[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs687191	0.85[EUR][1000 genomes]
rs7075778	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs792347	0.80[CEU][hapmap]
rs811561	0.93[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9424023	0.85[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	nsv5654	chr10:5868365-5930634	Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv825229	chr10:5886905-5967697	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1323659	FBXO18	cis	multi-tissue	Pritchard

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5896400-5918200	Weak transcription	Fetal Lung	lung
2	chr10:5901200-5918200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:5902400-5918200	Weak transcription	Primary T cells from cord blood	blood
4	chr10:5902800-5918000	Weak transcription	Lung	lung
5	chr10:5903400-5918200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr10:5903400-5925000	Weak transcription	Fetal Kidney	kidney
7	chr10:5903800-5918200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:5905200-5918200	Weak transcription	HepG2	liver
9	chr10:5908800-5918400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr10:5909400-5918200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr10:5909600-5924800	Weak transcription	Stomach Mucosa	stomach
12	chr10:5909800-5918200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:5911200-5918200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr10:5911400-5918200	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr10:5911600-5918200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr10:5911600-5919800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr10:5911600-5926800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr10:5912600-5918200	Weak transcription	HMEC	breast
19	chr10:5913000-5918000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr10:5913000-5918200	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr10:5913000-5929800	Weak transcription	Fetal Heart	heart
22	chr10:5913000-5929800	Weak transcription	Psoas Muscle	Psoas
23	chr10:5913800-5918200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr10:5913800-5918200	Weak transcription	NH-A	brain
25	chr10:5914000-5918000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:5914000-5918200	Weak transcription	Osteobl	bone
27	chr10:5914000-5929600	Weak transcription	NHLF	lung
28	chr10:5914200-5918000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr10:5914400-5918200	Weak transcription	Fetal Thymus	thymus
30	chr10:5914600-5918400	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr10:5915200-5917600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr10:5915600-5918200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr10:5915600-5924400	Weak transcription	Fetal Brain Male	brain
34	chr10:5915600-5930000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr10:5915600-5930000	Weak transcription	HUVEC	blood vessel
36	chr10:5915800-5918200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr10:5915800-5918200	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr10:5915800-5918200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr10:5915800-5918200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr10:5915800-5918200	Weak transcription	Brain Hippocampus Middle	brain
41	chr10:5915800-5918200	Weak transcription	Dnd41	blood
42	chr10:5915800-5919600	Weak transcription	Hela-S3	cervix
43	chr10:5915800-5920000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr10:5915800-5930000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr10:5915800-5930200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr10:5916000-5917000	Strong transcription	NHEK	skin
47	chr10:5916000-5917800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr10:5916000-5918000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr10:5916000-5918200	Weak transcription	HSMM	muscle
50	chr10:5916000-5921000	Weak transcription	Primary T helper cells PMA-I stimulated	--

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