Variant report

Variant	rs12029448
Chromosome Location	chr1:153376880-153376881
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	chr1:153372484..153374932-chr1:153375624..153379394,3	MCF-7	breast:
2	chr1:153333720..153335248-chr1:153373788..153377364,3	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs11205279	0.83[EUR][1000 genomes]
rs11205280	0.83[EUR][1000 genomes]
rs11205281	0.85[EUR][1000 genomes]
rs11205282	0.85[EUR][1000 genomes]
rs11205284	0.90[EUR][1000 genomes]
rs11205285	0.90[EUR][1000 genomes]
rs11205286	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11205288	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11205290	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11205291	0.90[EUR][1000 genomes]
rs11205292	0.90[EUR][1000 genomes]
rs11205293	0.90[EUR][1000 genomes]
rs11578443	0.85[EUR][1000 genomes]
rs11579041	0.87[EUR][1000 genomes]
rs11580424	0.89[EUR][1000 genomes]
rs11580467	0.90[EUR][1000 genomes]
rs11583949	0.83[EUR][1000 genomes]
rs11590633	0.89[EUR][1000 genomes]
rs12023124	0.90[EUR][1000 genomes]
rs12035710	0.82[EUR][1000 genomes]
rs12040625	0.82[EUR][1000 genomes]
rs12040887	0.83[EUR][1000 genomes]
rs12042217	0.85[EUR][1000 genomes]
rs12044231	0.88[EUR][1000 genomes]
rs12047833	0.90[EUR][1000 genomes]
rs2148318	0.86[EUR][1000 genomes]
rs2916191	0.85[EUR][1000 genomes]
rs2916192	0.85[EUR][1000 genomes]
rs2916194	0.83[EUR][1000 genomes]
rs2916201	0.82[EUR][1000 genomes]
rs2916215	0.82[EUR][1000 genomes]
rs2916216	0.83[EUR][1000 genomes]
rs2916217	0.83[EUR][1000 genomes]
rs2916218	0.82[EUR][1000 genomes]
rs2916221	0.83[EUR][1000 genomes]
rs2916222	0.83[EUR][1000 genomes]
rs3006475	0.83[EUR][1000 genomes]
rs3006476	0.82[EUR][1000 genomes]
rs3006477	0.83[EUR][1000 genomes]
rs3006479	0.82[EUR][1000 genomes]
rs3006480	0.82[EUR][1000 genomes]
rs3006482	0.82[EUR][1000 genomes]
rs3006483	0.82[EUR][1000 genomes]
rs3006485	0.82[EUR][1000 genomes]
rs3006488	0.83[EUR][1000 genomes]
rs3014807	0.83[EUR][1000 genomes]
rs3014812	0.85[EUR][1000 genomes]
rs3014878	0.83[EUR][1000 genomes]
rs3014879	0.85[EUR][1000 genomes]
rs3014880	0.85[EUR][1000 genomes]
rs3014881	0.85[EUR][1000 genomes]
rs3014885	0.83[EUR][1000 genomes]
rs34944646	0.85[EUR][1000 genomes]
rs3795391	0.85[EUR][1000 genomes]
rs3806232	0.83[EUR][1000 genomes]
rs41264640	0.86[EUR][1000 genomes]
rs4355996	0.88[EUR][1000 genomes]
rs4772	0.85[EUR][1000 genomes]
rs4845346	0.83[EUR][1000 genomes]
rs4845347	0.90[EUR][1000 genomes]
rs4845541	0.85[EUR][1000 genomes]
rs4845543	0.86[EUR][1000 genomes]
rs57572338	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs58127527	0.89[EUR][1000 genomes]
rs58644524	0.83[EUR][1000 genomes]
rs59655855	0.90[EUR][1000 genomes]
rs59678238	0.88[EUR][1000 genomes]
rs60752752	0.82[EUR][1000 genomes]
rs61803108	0.89[EUR][1000 genomes]
rs61803109	0.90[EUR][1000 genomes]
rs61803110	0.89[EUR][1000 genomes]
rs61803111	0.86[EUR][1000 genomes]
rs61803112	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61803337	0.83[EUR][1000 genomes]
rs61803339	0.85[EUR][1000 genomes]
rs61803340	0.89[EUR][1000 genomes]
rs6659104	0.83[EUR][1000 genomes]
rs6673905	0.89[EUR][1000 genomes]
rs6680386	0.90[EUR][1000 genomes]
rs6686657	0.90[EUR][1000 genomes]
rs6697489	0.89[EUR][1000 genomes]
rs6702735	0.88[EUR][1000 genomes]
rs73018470	0.87[EUR][1000 genomes]
rs9793023	0.88[EUR][1000 genomes]
rs9793935	0.88[EUR][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	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv533877	chr1:152923645-153468131	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153368600-153377600	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr1:153374600-153377600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
3	chr1:153376000-153377000	Enhancers	Primary B cells from cord blood	blood
4	chr1:153376000-153377400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
5	chr1:153376400-153377000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr1:153376800-153377600	ZNF genes & repeats	H9 Cell Line	embryonic stem cell

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