Variant report

Variant	rs1983141
Chromosome Location	chr6:54577809-54577810
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	chr6:54577593..54590845-chr6:54708062..54715554,67	MCF-7	breast:
2	chr6:54574954..54578587-chr6:54580352..54583856,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10085187	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1018140	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1039694	0.90[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1039695	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10738112	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10738113	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];1.00[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]
rs10807478	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10948832	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12210278	0.91[ASN][1000 genomes]
rs12662500	0.88[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1280714	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1280716	0.81[ASN][1000 genomes]
rs1354308	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1393859	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1395626	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1415875	0.84[ASN][1000 genomes]
rs1507111	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1572594	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1827514	0.80[ASN][1000 genomes]
rs1830662	0.81[ASN][1000 genomes]
rs2047828	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2297805	0.90[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4094928	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4106094	0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4712067	1.00[CHB][hapmap]
rs4715465	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4715471	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4715473	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs542639	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58010645	0.97[ASN][1000 genomes]
rs62414317	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6459022	0.90[CHB][hapmap];0.94[CHD][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs6906010	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6907631	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.84[JPT][hapmap];0.94[MKK][hapmap];0.83[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6909103	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6916459	0.90[CHB][hapmap];1.00[CHD][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6928097	0.84[ASN][1000 genomes]
rs6934405	0.82[CHB][hapmap];0.94[CHD][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7739195	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7739425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7747427	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7759470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7759660	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7770733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7771107	0.84[ASN][1000 genomes]
rs7772650	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.93[MKK][hapmap];0.83[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]
rs7773277	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs925053	0.95[ASN][1000 genomes]
rs925054	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296758	0.87[CHD][hapmap];0.82[JPT][hapmap]
rs9296765	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9296767	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9370324	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9395987	0.85[EUR][1000 genomes]
rs9464125	0.90[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9464130	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9464131	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474954	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9474955	0.82[CHB][hapmap]
rs9474956	0.82[CHB][hapmap]
rs9474975	0.85[ASN][1000 genomes]
rs9474976	0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9474981	0.94[ASN][1000 genomes]
rs9474984	0.90[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474985	0.90[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474986	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs962307	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs981683	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9918378	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54571400-54579800	Weak transcription	Fetal Intestine Small	intestine
2	chr6:54575200-54579600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:54575600-54579600	Weak transcription	Stomach Mucosa	stomach
4	chr6:54575800-54580400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:54575800-54581800	Weak transcription	Fetal Lung	lung

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