Variant report

Variant	rs6542900
Chromosome Location	chr2:100440205-100440206
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	chr2:100438595..100441140-chr2:100442686..100444862,2	K562	blood:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10175788	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10182690	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10191077	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10194527	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10198310	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10199548	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10204617	0.86[ASN][1000 genomes]
rs10496340	0.84[ASN][1000 genomes]
rs10865032	0.83[ASN][1000 genomes]
rs10865033	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10865034	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11123796	0.84[ASN][1000 genomes]
rs11123801	0.82[EUR][1000 genomes]
rs12478013	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12712060	0.96[ASN][1000 genomes]
rs13416974	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13423929	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13428668	0.84[AMR][1000 genomes]
rs1344701	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1344702	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1346621	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1366761	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1366763	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1366766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1429268	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1429269	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1568786	0.83[ASN][1000 genomes]
rs1594111	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1594113	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1608640	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2043006	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2115600	0.84[ASN][1000 genomes]
rs2115601	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2163044	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2309650	0.86[ASN][1000 genomes]
rs2871310	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4286327	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4481043	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4521099	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4850916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4851229	0.84[AMR][1000 genomes]
rs4851231	0.82[ASN][1000 genomes]
rs4851232	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4851234	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4851235	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62147565	0.86[ASN][1000 genomes]
rs6542890	0.84[AMR][1000 genomes]
rs6542901	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6542902	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6542903	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6705966	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6721652	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6723474	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6725716	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6732358	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6743473	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6747845	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6756821	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7560078	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7565155	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7566083	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7573572	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7586604	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7596023	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7604536	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9308829	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9967704	0.86[ASN][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	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1003343	chr2:100241560-100848900	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv535843	chr2:100241560-100848900	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2757820	chr2:100380891-100546675	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv2759078	chr2:100380891-100546675	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv2845	chr2:100421826-100466558	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100423600-100454600	Weak transcription	Lung	lung
2	chr2:100424000-100443000	Weak transcription	Dnd41	blood
3	chr2:100428000-100443000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr2:100428600-100443000	Weak transcription	Right Atrium	heart
5	chr2:100429000-100443000	Weak transcription	Aorta	Aorta
6	chr2:100430400-100442600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr2:100432000-100443000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr2:100432200-100443000	Strong transcription	Primary B cells from peripheral blood	blood
9	chr2:100432800-100440400	Strong transcription	Primary B cells from cord blood	blood
10	chr2:100433200-100441000	Weak transcription	Fetal Lung	lung
11	chr2:100433400-100442800	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr2:100433800-100443000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr2:100434400-100441400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr2:100434800-100443000	Weak transcription	Gastric	stomach
15	chr2:100434800-100443000	Weak transcription	Thymus	Thymus
16	chr2:100435800-100441200	Weak transcription	Liver	Liver
17	chr2:100436400-100443000	Weak transcription	Ovary	ovary
18	chr2:100436600-100443200	Weak transcription	Fetal Thymus	thymus
19	chr2:100438800-100452000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr2:100439200-100445200	Weak transcription	Fetal Kidney	kidney
21	chr2:100439400-100441200	Weak transcription	Fetal Brain Male	brain
22	chr2:100439400-100443000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr2:100439600-100442000	Weak transcription	Fetal Brain Female	brain
24	chr2:100439600-100442600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr2:100439600-100442600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr2:100439600-100443400	Weak transcription	Primary T cells from cord blood	blood
27	chr2:100439600-100443400	Weak transcription	Fetal Stomach	stomach
28	chr2:100439800-100440600	Weak transcription	NH-A	brain
29	chr2:100439800-100442200	Weak transcription	Brain Germinal Matrix	brain
30	chr2:100439800-100443000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr2:100440200-100440400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr2:100440200-100440400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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