Variant report

Variant	rs1326198
Chromosome Location	chr10:91597636-91597637
allele	C/T
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:2)
LncRNA
region (count:6)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:91596297..91598343-chr10:91607270..91608932,2	MCF-7	breast:
2	chr10:91596270..91598135-chr10:91628294..91631129,2	MCF-7	breast:

(count:6 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIF20B-2	chr10:91596975-91600618	ENSG00000232229
2	lnc-KIF20B-2	chr10:91596975-91600618	ENSG00000232229
3	lnc-KIF20B-2	chr10:91596975-91600618	NONHSAT015546
4	lnc-KIF20B-2	chr10:91596975-91599568	NONHSAT015550
5	lnc-KIF20B-2	chr10:91596744-91600600	NONHSAT015553
6	lnc-PANK1-6	chr10:91597369-91599091	NONHSAT015554

No data

Extended variants
information (count: 87 )
Associated
traits (count: 18 )

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs1125326	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11593486	0.81[ASN][1000 genomes]
rs11814174	0.82[CHB][hapmap]
rs12240414	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12244597	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12252414	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12263026	0.93[EUR][1000 genomes]
rs12265484	1.00[CEU][hapmap];0.91[GIH][hapmap];0.87[TSI][hapmap]
rs12763878	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12763984	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12766364	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12770938	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12773439	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12775585	0.84[EUR][1000 genomes]
rs1326199	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1408582	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17127746	0.89[EUR][1000 genomes]
rs17127968	0.92[EUR][1000 genomes]
rs17128049	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17128178	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17385594	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1998643	0.81[ASN][1000 genomes]
rs2148276	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2181946	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182397	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34395627	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34407717	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34498741	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34498979	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34548995	0.93[EUR][1000 genomes]
rs34768430	0.81[ASN][1000 genomes]
rs34833458	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35305443	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35494197	0.89[EUR][1000 genomes]
rs35495765	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35557724	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35569149	0.93[ASN][1000 genomes]
rs35606974	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35762262	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35768372	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36067049	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36075457	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3740040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3740042	0.89[EUR][1000 genomes]
rs3802651	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932503	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55977662	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56246606	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56318801	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57160906	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57529292	0.86[EUR][1000 genomes]
rs57585079	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57603165	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58250931	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58929000	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58933281	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60634654	0.90[EUR][1000 genomes]
rs60925336	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61128077	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61303211	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61646033	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61869791	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61869800	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61869806	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6583662	1.00[CEU][hapmap];0.91[GIH][hapmap];0.87[TSI][hapmap]
rs68147789	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7076194	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7076219	0.89[EUR][1000 genomes]
rs7083051	1.00[CEU][hapmap];0.91[GIH][hapmap];0.87[TSI][hapmap]
rs7098084	1.00[ASN][1000 genomes]
rs7475158	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7895272	0.89[EUR][1000 genomes]
rs7895530	0.83[CEU][hapmap]
rs7895851	1.00[CEU][hapmap];0.91[GIH][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs7895863	0.91[CEU][hapmap];0.91[GIH][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs7899499	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7908739	0.93[EUR][1000 genomes]
rs7908779	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7908953	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7912390	1.00[ASN][1000 genomes]
rs7918018	1.00[CEU][hapmap]

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	nsv1046241	chr10:91478562-91614437	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv869080	chr10:91498641-91712834	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1036581	chr10:91526705-91691536	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1043571	chr10:91568555-92036154	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv551874	chr10:91570211-92036154	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv949678	chr10:91589048-92016474	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:18)

SNP	Gene	Cis/trans	Tissue	Source
rs1326198	LINC00865	cis	Adipose Subcutaneous	GTEx
rs1326198	LINC00865	cis	Nerve Tibial	GTEx
rs1326198	RP11-248C1.3	cis	Adipose Subcutaneous	GTEx
rs1326198	KIF20B	cis	cerebellum	SCAN
rs1326198	LINC00865	cis	Esophagus Muscularis	GTEx
rs1326198	RP11-248C1.3	cis	Nerve Tibial	GTEx
rs1326198	LINC00865	cis	Skin Sun Exposed Lower leg	GTEx
rs1326198	RP11-248C1.3	cis	Esophagus Muscularis	GTEx
rs1326198	RP11-248C1.3	cis	lung	GTEx
rs1326198	SNCG	cis	parietal	SCAN
rs1326198	RP11-248C1.3	cis	Artery Aorta	GTEx
rs1326198	LINC00865	cis	Artery Aorta	GTEx
rs1326198	RP11-248C1.3	cis	Thyroid	GTEx
rs1326198	RP11-248C1.3	cis	Artery Tibial	GTEx
rs1326198	LINC00865	cis	lung	GTEx
rs1326198	LINC00865	cis	Thyroid	GTEx
rs1326198	LIPJ	cis	parietal	SCAN
rs1326198	LINC00865	cis	Artery Tibial	GTEx

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91596400-91598000	Active TSS	Fetal Intestine Large	intestine
2	chr10:91596600-91597800	Active TSS	Rectal Mucosa Donor 31	rectum
3	chr10:91596600-91597800	Active TSS	Stomach Mucosa	stomach
4	chr10:91596600-91597800	Active TSS	Stomach Smooth Muscle	stomach
5	chr10:91596600-91597800	Active TSS	NHDF-Ad	bronchial
6	chr10:91596600-91598000	Active TSS	Primary T cells from cord blood	blood
7	chr10:91596600-91598000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
8	chr10:91596600-91598000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr10:91596600-91598000	Active TSS	Lung	lung
10	chr10:91596600-91598200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr10:91596600-91598200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr10:91596600-91598200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:91596600-91598200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr10:91596600-91598200	Active TSS	Brain Substantia Nigra	brain
15	chr10:91596600-91598200	Active TSS	Fetal Brain Female	brain
16	chr10:91596600-91598200	Active TSS	Fetal Intestine Small	intestine
17	chr10:91596600-91598400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr10:91596600-91598400	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr10:91596600-91598400	Active TSS	Rectal Smooth Muscle	rectum
20	chr10:91596600-91598600	Active TSS	Brain Anterior Caudate	brain
21	chr10:91596600-91598600	Active TSS	Duodenum Mucosa	Duodenum
22	chr10:91596800-91597800	Active TSS	Primary T helper naive cells from peripheral blood	blood
23	chr10:91596800-91597800	Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr10:91596800-91597800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr10:91596800-91597800	Active TSS	Fetal Brain Male	brain
26	chr10:91596800-91597800	Active TSS	Small Intestine	intestine
27	chr10:91596800-91597800	Flanking Active TSS	NHEK	skin
28	chr10:91596800-91598000	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
29	chr10:91596800-91598000	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
30	chr10:91596800-91598000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
31	chr10:91596800-91598000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
32	chr10:91596800-91598000	Active TSS	Primary T killer memory cells from peripheral blood	blood
33	chr10:91596800-91598000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
34	chr10:91596800-91598000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr10:91596800-91598000	Active TSS	Pancreatic Islets	Pancreatic Islet
36	chr10:91596800-91598000	Active TSS	Fetal Lung	lung
37	chr10:91596800-91598000	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
38	chr10:91596800-91598000	Flanking Active TSS	Placenta	Placenta
39	chr10:91596800-91598000	Active TSS	Gastric	stomach
40	chr10:91596800-91598000	Active TSS	Left Ventricle	heart
41	chr10:91596800-91598000	Active TSS	Sigmoid Colon	Sigmoid Colon
42	chr10:91596800-91598000	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
43	chr10:91596800-91598000	Active TSS	Osteobl	bone
44	chr10:91596800-91598200	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr10:91596800-91598200	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
46	chr10:91596800-91598200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr10:91596800-91598200	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
48	chr10:91596800-91598200	Active TSS	Aorta	Aorta
49	chr10:91596800-91598200	Active TSS	Brain Angular Gyrus	brain
50	chr10:91596800-91598200	Active TSS	Colon Smooth Muscle	Colon

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