Variant report

Variant	rs6881622
Chromosome Location	chr5:60609252-60609253
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:60607093..60609330-chr5:60616167..60617939,2	MCF-7	breast:
2	chr5:60596572..60599250-chr5:60605731..60609279,3	MCF-7	breast:
3	chr5:60608445..60610202-chr5:60628831..60630398,2	MCF-7	breast:
4	chr5:60600486..60603584-chr5:60608249..60610212,3	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10939897	0.91[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10939898	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11743133	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11747144	0.92[CEU][hapmap];0.92[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11960587	0.93[CEU][hapmap];0.97[EUR][1000 genomes]
rs13154581	0.93[CEU][hapmap];0.95[TSI][hapmap];0.93[EUR][1000 genomes]
rs13154663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13156118	0.93[CEU][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13162866	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13164720	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13171223	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13174916	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13178686	0.85[CEU][hapmap]
rs13182603	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34027100	0.80[EUR][1000 genomes]
rs34323293	0.82[EUR][1000 genomes]
rs4409043	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4513641	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4544785	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62366236	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6449526	0.87[CEU][hapmap];0.87[CHD][hapmap]
rs6449527	0.81[CEU][hapmap];0.87[CHD][hapmap]
rs6860599	0.86[CEU][hapmap]
rs6867278	0.81[CEU][hapmap]
rs6870349	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6889338	0.81[CEU][hapmap]
rs7704636	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028884	chr5:60414723-60732779	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv823089	chr5:60589501-60669903	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60600600-60609800	Weak transcription	Ovary	ovary
2	chr5:60600800-60615800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:60603200-60609800	Weak transcription	Fetal Lung	lung
4	chr5:60603200-60609800	Weak transcription	Stomach Mucosa	stomach
5	chr5:60603800-60609600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr5:60605200-60609800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:60605200-60609800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:60606600-60610400	Enhancers	Placenta	Placenta
9	chr5:60606600-60610800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr5:60606600-60611200	Enhancers	Hela-S3	cervix
11	chr5:60606600-60611400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr5:60606600-60611800	Enhancers	HSMM	muscle
13	chr5:60607200-60610200	Enhancers	Muscle Satellite Cultured Cells	--
14	chr5:60607200-60610200	Enhancers	HUVEC	blood vessel
15	chr5:60607200-60611800	Enhancers	NHLF	lung
16	chr5:60607400-60609800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr5:60607400-60610200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr5:60607600-60609400	Weak transcription	Lung	lung
19	chr5:60607600-60609800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr5:60607600-60610600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr5:60607600-60611400	Enhancers	Osteobl	bone
22	chr5:60607800-60609800	Enhancers	HSMMtube	muscle
23	chr5:60607800-60611400	Enhancers	NHDF-Ad	bronchial
24	chr5:60607800-60611800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr5:60607800-60614600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr5:60608200-60610800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr5:60608200-60611000	Enhancers	HMEC	breast
28	chr5:60608200-60611000	Enhancers	NHEK	skin
29	chr5:60608400-60610800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr5:60608400-60611000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr5:60608600-60609800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr5:60608800-60609800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr5:60608800-60609800	Weak transcription	Colon Smooth Muscle	Colon
34	chr5:60608800-60609800	Enhancers	A549	lung
35	chr5:60608800-60610000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr5:60608800-60614400	Weak transcription	Stomach Smooth Muscle	stomach
37	chr5:60608800-60615400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr5:60609000-60609400	Weak transcription	NH-A	brain
39	chr5:60609200-60609800	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr5:60609200-60610800	Enhancers	Primary hematopoietic stem cells	blood
41	chr5:60609200-60611000	Enhancers	Primary monocytes fromperipheralblood	blood
42	chr5:60609200-60611000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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