Variant report

Variant	rs12281339
Chromosome Location	chr11:59882012-59882013
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	chr11:59880513..59883091-chr11:59889484..59891627,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10082619	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10082648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10128741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10466662	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10466683	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10897012	1.00[AMR][1000 genomes]
rs11230139	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11230159	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11230175	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11230176	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11230177	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11230179	1.00[AMR][1000 genomes]
rs11230181	1.00[AMR][1000 genomes]
rs11230185	1.00[AMR][1000 genomes]
rs11230189	1.00[AMR][1000 genomes]
rs11230191	1.00[AMR][1000 genomes]
rs11501460	1.00[AMR][1000 genomes]
rs12269729	1.00[AMR][1000 genomes]
rs12270211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12271072	1.00[AMR][1000 genomes]
rs12271845	1.00[AMR][1000 genomes]
rs12271938	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12272417	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12274187	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12277654	1.00[AMR][1000 genomes]
rs12278512	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12279586	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12281124	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12281249	1.00[AMR][1000 genomes]
rs12281633	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12282483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12284742	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12285212	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12285390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12286820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12286935	1.00[AMR][1000 genomes]
rs12287486	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12287735	1.00[AMR][1000 genomes]
rs12288390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12288966	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12289301	1.00[AMR][1000 genomes]
rs12289305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12289397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12291241	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12291355	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12291992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12293784	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12293900	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12294265	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12294531	1.00[AMR][1000 genomes]
rs12295325	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12295720	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13377336	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1837785	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4405337	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57191082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58413906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59692218	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59786720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60175493	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61363655	1.00[AFR][1000 genomes];1.00[AMR][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	nsv832173	chr11:59788884-59940560	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv468579	chr11:59814287-59975400	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv555150	chr11:59814287-59975400	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59877000-59885000	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr11:59877000-59885800	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr11:59878800-59882200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr11:59879200-59882400	Enhancers	Fetal Intestine Small	intestine
5	chr11:59879400-59897600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr11:59879800-59888200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr11:59880000-59883600	Weak transcription	K562	blood
8	chr11:59880800-59882200	Enhancers	Fetal Intestine Large	intestine
9	chr11:59881000-59882200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr11:59881000-59883800	Enhancers	Ovary	ovary
11	chr11:59881400-59882200	Enhancers	H1 Cell Line	embryonic stem cell
12	chr11:59881800-59882400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr11:59881800-59884000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr11:59881800-59884200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:59881800-59888200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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