Variant report

Variant	rs9332655
Chromosome Location	chr1:169490592-169490593
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169484527..169487185-chr1:169488820..169490773,2	K562	blood:
2	chr1:169449894..169459462-chr1:169475885..169501963,75	MCF-7	breast:
3	chr1:169481912..169483495-chr1:169489878..169491578,2	MCF-7	breast:
4	chr1:169490192..169493609-chr1:169495804..169500257,7	MCF-7	breast:
5	chr1:169486047..169488375-chr1:169489755..169492077,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000117479	Chromatin interaction
ENSG00000198734	Chromatin interaction
ENSG00000213062	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10800450	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10800453	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10919178	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1121789	0.90[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11579441	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12127364	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1557570	0.90[CEU][hapmap];0.84[CHB][hapmap]
rs1557572	0.91[CEU][hapmap]
rs2009814	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2187952	0.91[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2187953	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2213866	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2213867	0.90[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2227244	0.91[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2239851	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2239852	0.91[CEU][hapmap]
rs2301515	0.91[CEU][hapmap]
rs2420373	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3766103	0.92[CHB][hapmap]
rs3766109	0.91[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3820060	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs4524	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4525	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4656187	0.91[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4656684	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4656685	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4656687	0.91[CEU][hapmap]
rs6016	0.90[CEU][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6017	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6021	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6030	0.95[CEU][hapmap];0.84[CHB][hapmap]
rs6032	0.91[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6662593	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6662696	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6670393	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6675244	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6701330	0.95[CEU][hapmap];0.84[CHB][hapmap]
rs916438	0.91[CEU][hapmap]
rs9287090	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9287092	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9332600	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9332619	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9332620	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9332627	0.95[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9332635	1.00[CHB][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332643	0.95[CEU][hapmap];0.92[CHB][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332651	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9332653	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs9332665	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs9332667	0.91[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs970741	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs974793	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer 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	56 gene(s)	inside rSNPs	diseases
2	nsv872533	chr1:169490401-169508576	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	3 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	chr1:169481800-169493000	Strong transcription	Liver	Liver
2	chr1:169482600-169490800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr1:169483200-169495400	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr1:169483200-169496800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr1:169483800-169496800	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr1:169484200-169494400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr1:169484800-169501000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr1:169485400-169510600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr1:169486600-169494400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr1:169487000-169490600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:169487400-169501000	Weak transcription	Right Ventricle	heart
12	chr1:169488000-169492800	Weak transcription	Hela-S3	cervix
13	chr1:169488000-169493000	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr1:169489800-169492000	Strong transcription	Placenta	Placenta
15	chr1:169489800-169494600	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr1:169490200-169490600	Enhancers	Fetal Intestine Small	intestine
17	chr1:169490200-169490600	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr1:169490200-169490800	Enhancers	Stomach Mucosa	stomach
19	chr1:169490200-169491200	Enhancers	Small Intestine	intestine
20	chr1:169490400-169490800	Flanking Active TSS	Duodenum Mucosa	Duodenum
21	chr1:169490400-169490800	Enhancers	Pancreas	Pancrea
22	chr1:169490400-169490800	Enhancers	Rectal Mucosa Donor 29	rectum
23	chr1:169490400-169490800	Enhancers	Sigmoid Colon	Sigmoid Colon
24	chr1:169490400-169490800	Genic enhancers	HepG2	liver
25	chr1:169490400-169491200	Enhancers	Fetal Intestine Large	intestine

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