Variant report

Variant	rs11119425
Chromosome Location	chr1:210339385-210339386
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:210338675..210341469-chr1:210342023..210343618,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1002382	0.82[ASN][1000 genomes]
rs10746423	0.90[AMR][1000 genomes]
rs10779523	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10779525	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10779526	0.93[EUR][1000 genomes]
rs1099863	0.81[AMR][1000 genomes]
rs11119376	0.81[AMR][1000 genomes]
rs11119427	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11119428	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11119429	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12129172	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1334567	0.91[AMR][1000 genomes]
rs1334568	0.89[AMR][1000 genomes]
rs1387933	0.87[AMR][1000 genomes]
rs1413695	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1490419	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1933477	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2130630	0.82[ASN][1000 genomes]
rs227169	0.88[AMR][1000 genomes]
rs227172	0.91[AMR][1000 genomes]
rs227174	0.87[AMR][1000 genomes]
rs227179	0.87[AMR][1000 genomes]
rs227191	0.83[AMR][1000 genomes]
rs227193	0.83[AMR][1000 genomes]
rs227196	0.83[AMR][1000 genomes]
rs227201	0.86[AMR][1000 genomes]
rs227203	0.86[AMR][1000 genomes]
rs227204	0.90[AMR][1000 genomes]
rs227205	0.90[AMR][1000 genomes]
rs227209	0.93[AMR][1000 genomes]
rs227211	0.90[AMR][1000 genomes]
rs227217	0.82[AMR][1000 genomes]
rs227218	0.83[AMR][1000 genomes]
rs227219	0.83[AMR][1000 genomes]
rs2484031	0.82[AFR][1000 genomes]
rs2484032	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs2485890	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2485891	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2485892	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2485893	0.93[EUR][1000 genomes]
rs2485894	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2494168	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2494169	1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2494189	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2494190	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2494191	0.88[AFR][1000 genomes]
rs2636376	0.87[AMR][1000 genomes]
rs2743889	0.87[AMR][1000 genomes]
rs4421592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4589109	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs4844508	0.82[ASN][1000 genomes]
rs4844947	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4844951	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs4844952	0.82[ASN][1000 genomes]
rs4844954	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs6540580	0.89[AMR][1000 genomes]
rs6540584	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6656855	0.91[AMR][1000 genomes]
rs701947	0.85[CHB][hapmap];0.87[AMR][1000 genomes]
rs701948	0.85[CHB][hapmap];0.82[AMR][1000 genomes]
rs7519750	0.91[AMR][1000 genomes]
rs7528647	0.82[AMR][1000 genomes]
rs7529352	0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs7541569	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs846551	0.83[AMR][1000 genomes]
rs846552	0.83[AMR][1000 genomes]
rs846554	0.84[AMR][1000 genomes]
rs846555	0.84[AMR][1000 genomes]
rs9659395	0.91[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv873144	chr1:210252522-210347417	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv873145	chr1:210302595-210347417	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv873146	chr1:210312760-210347417	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210333200-210340600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr1:210337600-210340600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr1:210338400-210339400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:210339000-210339600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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