Variant report

Variant	rs7733069
Chromosome Location	chr5:60057836-60057837
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	chr5:59928143..59930570-chr5:60056842..60058406,2	MCF-7	breast:

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10073959	0.89[ASN][1000 genomes]
rs1026418	1.00[CHB][hapmap];0.94[CHD][hapmap];0.85[JPT][hapmap]
rs1107232	1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1107233	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12658660	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1379111	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs1456744	0.89[ASN][1000 genomes]
rs1460959	0.93[CHB][hapmap];0.85[CHD][hapmap];0.89[ASN][1000 genomes]
rs1563516	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1563517	0.93[CHB][hapmap];0.85[CHD][hapmap];0.89[ASN][1000 genomes]
rs1563518	0.91[CHB][hapmap];0.89[ASN][1000 genomes]
rs1563519	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs1563520	0.89[ASN][1000 genomes]
rs1563521	0.89[ASN][1000 genomes]
rs1563905	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs1563906	0.91[CHB][hapmap];0.89[ASN][1000 genomes]
rs1563907	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs16878315	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs16878354	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16878411	1.00[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs16878412	0.89[ASN][1000 genomes]
rs16878413	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1870012	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1870013	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1982595	0.89[ASN][1000 genomes]
rs1982596	0.89[ASN][1000 genomes]
rs1992613	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs2045355	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs2124751	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs2169254	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs2305680	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2898298	0.93[CHB][hapmap];0.90[ASN][1000 genomes]
rs3857238	0.93[CHB][hapmap];0.85[CHD][hapmap];0.89[ASN][1000 genomes]
rs4273559	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[ASN][1000 genomes]
rs4565168	0.89[ASN][1000 genomes]
rs4623105	0.89[ASN][1000 genomes]
rs6871928	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs6885202	1.00[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6885787	0.89[ASN][1000 genomes]
rs7701983	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7702459	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs7706896	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[ASN][1000 genomes]
rs7708849	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs7712043	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs7713586	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7713673	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7716051	0.93[CHB][hapmap];0.85[CHD][hapmap];0.89[ASN][1000 genomes]
rs7719525	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs881066	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs897671	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs897673	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492277	chr5:59905195-60180834	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv462198	chr5:59969015-60116613	Strong transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv598298	chr5:59969015-60116613	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1023403	chr5:59969534-60079822	Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv934153	chr5:60004982-60309751	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	esv2763456	chr5:60007355-60151767	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv1026190	chr5:60020156-60148535	Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv537769	chr5:60020156-60148535	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
9	esv2752073	chr5:60034475-60136626	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
10	nsv949662	chr5:60047974-60488379	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
11	nsv1017095	chr5:60050600-60414783	Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
12	nsv968918	chr5:60057231-60058760	Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60040800-60066600	Weak transcription	Fetal Intestine Small	intestine
2	chr5:60044800-60081600	Weak transcription	Duodenum Mucosa	Duodenum
3	chr5:60044800-60098000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr5:60045200-60065000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr5:60045200-60084400	Weak transcription	Brain Angular Gyrus	brain
6	chr5:60046000-60061000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:60046200-60065000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr5:60056600-60058000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr5:60057600-60061200	Weak transcription	Fetal Intestine Large	intestine
10	chr5:60057600-60092200	Weak transcription	Brain Anterior Caudate	brain
11	chr5:60057600-60093200	Weak transcription	Pancreas	Pancrea
12	chr5:60057800-60074800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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