Variant report

Variant	rs1743945
Chromosome Location	chr6:134554252-134554253
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:134553108..134554693-chr6:134556354..134559341,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1631024	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1631657	0.82[AFR][1000 genomes]
rs1631879	0.83[AFR][1000 genomes]
rs1743937	0.82[AFR][1000 genomes]
rs1743938	0.84[YRI][hapmap];0.83[AFR][1000 genomes]
rs1743939	0.93[CEU][hapmap];0.84[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1743940	0.81[YRI][hapmap];0.83[AFR][1000 genomes]
rs1743941	0.93[CEU][hapmap];0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1743942	0.83[AFR][1000 genomes]
rs1743946	0.95[YRI][hapmap]
rs6569935	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7759115	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9385680	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492292	chr6:134464255-135028540	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv1026369	chr6:134468470-135122264	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv538444	chr6:134468470-135122264	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
4	nsv1018677	chr6:134512542-134638259	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538445	chr6:134512542-134638259	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1023931	chr6:134512542-134668702	Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538446	chr6:134512542-134668702	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv441702	chr6:134550755-134557203	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:134545800-134554600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:134547800-134557600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:134551000-134564000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:134551400-134558800	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr6:134551400-134559600	Weak transcription	Adipose Nuclei	Adipose
6	chr6:134551400-134560200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr6:134551600-134554400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:134551600-134561600	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:134551800-134554400	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:134551800-134556800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr6:134551800-134556800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr6:134551800-134556800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:134551800-134556800	Weak transcription	HUVEC	blood vessel
14	chr6:134552000-134557000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:134552200-134558600	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr6:134552400-134556200	Weak transcription	Primary B cells from peripheral blood	blood
17	chr6:134552400-134556200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:134552400-134557400	Weak transcription	Primary T cells from cord blood	blood
19	chr6:134552400-134557400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:134552600-134556200	Weak transcription	Primary B cells from cord blood	blood
21	chr6:134552600-134556200	Weak transcription	GM12878-XiMat	blood
22	chr6:134553800-134558200	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr6:134554200-134554800	Enhancers	Brain Anterior Caudate	brain

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