Variant report

Variant	rs6505822
Chromosome Location	chr18:13520356-13520357
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:13512015..13513700-chr18:13517381..13520375,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RNMT-4	chr18:13519726-13522887	NONHSAT058443
2	lnc-FAM210A-4	chr18:13519731-13522887	ENSG00000267136.1

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10163734	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10853235	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10853236	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12458741	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12955640	0.81[MEX][hapmap]
rs1648585	0.81[MEX][hapmap]
rs1648593	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1785205	0.81[MEX][hapmap]
rs1812468	0.91[ASN][1000 genomes]
rs1940916	0.81[MEX][hapmap]
rs2027682	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2027683	0.94[ASW][hapmap];1.00[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28553387	0.98[ASN][1000 genomes]
rs3132835	0.81[MEX][hapmap]
rs3859302	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56870459	0.98[ASN][1000 genomes]
rs6505818	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6505819	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6505820	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6505821	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7227383	1.00[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7230189	1.00[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7230276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7239669	1.00[CEU][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7240391	0.81[MEX][hapmap]
rs7240821	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7240858	0.86[MEX][hapmap]
rs7241010	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7241766	0.94[ASW][hapmap];1.00[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8088361	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8091197	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8091352	0.94[ASW][hapmap];1.00[CEU][hapmap];0.81[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8092166	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531246	chr18:13298774-14082028	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	esv1827877	chr18:13511622-13523462	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13471000-13537400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr18:13499600-13539200	Weak transcription	Gastric	stomach
3	chr18:13499800-13531000	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr18:13501600-13525000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr18:13501800-13530600	Weak transcription	Rectal Smooth Muscle	rectum
6	chr18:13502800-13525200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr18:13503200-13521000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr18:13505000-13536000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr18:13507000-13536400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr18:13511600-13530400	Weak transcription	Colon Smooth Muscle	Colon
11	chr18:13512200-13521600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr18:13513200-13526600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr18:13513200-13538200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr18:13513400-13523800	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr18:13514000-13523800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr18:13515600-13521000	Weak transcription	Brain Anterior Caudate	brain
17	chr18:13517000-13532400	Weak transcription	HepG2	liver
18	chr18:13517400-13525000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr18:13517600-13520600	Weak transcription	Lung	lung
20	chr18:13517600-13521000	Strong transcription	Thymus	Thymus
21	chr18:13517600-13521400	Strong transcription	Fetal Thymus	thymus
22	chr18:13517600-13523200	Weak transcription	Primary B cells from cord blood	blood
23	chr18:13517600-13523600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr18:13517600-13523600	Weak transcription	Spleen	Spleen
25	chr18:13517600-13524800	Weak transcription	Stomach Smooth Muscle	stomach
26	chr18:13517600-13526200	Weak transcription	Brain Germinal Matrix	brain
27	chr18:13517600-13526800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr18:13517600-13532800	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr18:13517600-13539000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr18:13517600-13539200	Weak transcription	Aorta	Aorta
31	chr18:13517800-13523000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr18:13517800-13525000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr18:13517800-13530200	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr18:13518200-13525400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr18:13519000-13523600	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr18:13519000-13525200	Weak transcription	Fetal Brain Female	brain
37	chr18:13519000-13527000	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr18:13519000-13529200	Weak transcription	Primary hematopoietic stem cells	blood
39	chr18:13519000-13530200	Weak transcription	Fetal Lung	lung
40	chr18:13519200-13521400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr18:13519200-13522400	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr18:13519200-13523400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr18:13519400-13521800	Weak transcription	Liver	Liver
44	chr18:13519400-13522400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr18:13519400-13527000	Weak transcription	Fetal Stomach	stomach
46	chr18:13520000-13520600	Enhancers	Adipose Nuclei	Adipose
47	chr18:13520000-13520600	Enhancers	Fetal Heart	heart
48	chr18:13520000-13521200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
49	chr18:13520000-13522800	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr18:13520000-13523000	Enhancers	Skeletal Muscle Female	skeletal muscle

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