Variant report

Variant	rs2889687
Chromosome Location	chr10:49911248-49911249
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	chr10:49905425..49907287-chr10:49911171..49913733,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10458721	0.80[ASN][1000 genomes]
rs10776634	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10776635	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10776636	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10776637	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10776638	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10857619	0.81[ASN][1000 genomes]
rs10857620	0.81[ASN][1000 genomes]
rs10857621	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10857622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10857623	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10857624	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11101430	0.81[ASN][1000 genomes]
rs11101431	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11101437	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12783753	0.80[ASN][1000 genomes]
rs1871610	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2377626	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7067842	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7100075	0.87[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7100103	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7911189	0.81[ASN][1000 genomes]
rs7922132	0.81[ASN][1000 genomes]
rs7924148	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1049259	chr10:49901984-49924310	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49897000-49918200	Genic enhancers	Primary B cells from peripheral blood	blood
2	chr10:49903800-49911400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:49907400-49917800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr10:49907600-49911800	Weak transcription	Left Ventricle	heart
5	chr10:49907600-49912200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:49907800-49912000	Weak transcription	Right Ventricle	heart
7	chr10:49908200-49922800	Weak transcription	Spleen	Spleen
8	chr10:49909400-49911400	Enhancers	Primary B cells from cord blood	blood
9	chr10:49909600-49912000	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr10:49909600-49912200	Enhancers	Fetal Stomach	stomach
11	chr10:49909800-49912400	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr10:49910000-49914000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
13	chr10:49910200-49913200	Enhancers	Fetal Lung	lung
14	chr10:49910600-49912200	Weak transcription	Esophagus	oesophagus
15	chr10:49910600-49912200	Weak transcription	Fetal Heart	heart
16	chr10:49910800-49912200	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr10:49910800-49917800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr10:49911000-49911400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr10:49911000-49911800	Strong transcription	GM12878-XiMat	blood
20	chr10:49911000-49917800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr10:49911000-49917800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr10:49911200-49911400	Enhancers	Duodenum Mucosa	Duodenum
23	chr10:49911200-49911600	Enhancers	Lung	lung
24	chr10:49911200-49911600	Enhancers	Rectal Mucosa Donor 29	rectum
25	chr10:49911200-49912000	Weak transcription	Sigmoid Colon	Sigmoid Colon

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