Variant report

Variant	rs1557572
Chromosome Location	chr1:169508576-169508577
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169453358..169456448-chr1:169507622..169509906,3	MCF-7	breast:
2	chr1:169453945..169456967-chr1:169506967..169510528,4	K562	blood:
3	chr1:169449555..169458933-chr1:169508181..169519645,22	MCF-7	breast:
4	chr1:169453945..169456967-chr1:169507929..169510528,3	K562	blood:
5	chr1:169445664..169448576-chr1:169507700..169509701,2	MCF-7	breast:
6	chr1:169477985..169481647-chr1:169506965..169511270,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000117479	Chromatin interaction
ENSG00000213062	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1046712	1.00[ASN][1000 genomes]
rs10800454	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10800456	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1557570	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs1894694	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2157581	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2239852	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2298909	0.88[CEU][hapmap]
rs2301515	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3820060	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs4656185	0.83[EUR][1000 genomes]
rs4656687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6030	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs61805767	0.93[ASN][1000 genomes]
rs6686805	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6701330	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs7535409	0.87[EUR][1000 genomes]
rs916438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9332599	0.83[EUR][1000 genomes]
rs9332627	0.83[CEU][hapmap]
rs9332655	0.91[CEU][hapmap]
rs9332665	0.96[CEU][hapmap];0.83[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	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:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169485400-169510600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr1:169496000-169515200	Strong transcription	Liver	Liver
3	chr1:169498400-169524000	Weak transcription	Placenta	Placenta
4	chr1:169499000-169519000	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr1:169500200-169526800	Weak transcription	Left Ventricle	heart
6	chr1:169504000-169515000	Strong transcription	HepG2	liver
7	chr1:169505200-169510200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr1:169505800-169511000	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr1:169505800-169534800	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr1:169506000-169510800	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr1:169506200-169542800	Weak transcription	Right Ventricle	heart
12	chr1:169507000-169530800	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr1:169507400-169509600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr1:169507800-169508800	Enhancers	Hela-S3	cervix
15	chr1:169507800-169509000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr1:169507800-169509000	Enhancers	HSMMtube	muscle
17	chr1:169507800-169509200	Enhancers	NHEK	skin
18	chr1:169508000-169508800	Enhancers	Muscle Satellite Cultured Cells	--
19	chr1:169508000-169508800	Enhancers	A549	lung
20	chr1:169508000-169508800	Enhancers	NHLF	lung
21	chr1:169508000-169509000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr1:169508000-169509000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr1:169508000-169509000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:169508000-169509000	Enhancers	HSMM	muscle
25	chr1:169508000-169509000	Enhancers	NH-A	brain
26	chr1:169508000-169509200	Enhancers	HMEC	breast
27	chr1:169508400-169508800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:169508400-169508800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr1:169508400-169509000	Enhancers	Stomach Mucosa	stomach
30	chr1:169508400-169509200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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