Variant report

Variant	rs28238
Chromosome Location	chr7:41200292-41200293
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	chr7:41196553..41198239-chr7:41199242..41201799,2	K562	blood:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10227446	0.85[EUR][1000 genomes]
rs10227663	0.85[EUR][1000 genomes]
rs10258940	0.92[EUR][1000 genomes]
rs10274211	0.92[EUR][1000 genomes]
rs1859693	0.92[EUR][1000 genomes]
rs2108156	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2108157	0.92[EUR][1000 genomes]
rs28176	0.86[ASN][1000 genomes]
rs28314	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28880	0.92[EUR][1000 genomes]
rs29476	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs29477	0.92[EUR][1000 genomes]
rs29478	0.91[EUR][1000 genomes]
rs29482	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs29483	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29484	0.88[ASN][1000 genomes]
rs29485	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29486	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29488	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29489	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29490	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29492	0.90[ASN][1000 genomes]
rs29493	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29494	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs29495	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29496	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29497	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29498	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29499	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29500	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29501	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29502	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29504	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29505	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29506	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29508	0.91[ASN][1000 genomes]
rs29509	0.91[ASN][1000 genomes]
rs29511	0.91[ASN][1000 genomes]
rs29512	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29513	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29514	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29515	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29518	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29519	0.86[ASN][1000 genomes]
rs29521	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29522	0.86[ASN][1000 genomes]
rs29523	0.84[ASN][1000 genomes]
rs29524	0.85[ASN][1000 genomes]
rs29525	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29526	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs29530	0.82[ASN][1000 genomes]
rs29532	0.82[ASN][1000 genomes]
rs4720399	0.92[EUR][1000 genomes]
rs4724029	0.85[EUR][1000 genomes]
rs6463005	0.85[EUR][1000 genomes]
rs6463006	0.85[EUR][1000 genomes]
rs6463007	0.85[EUR][1000 genomes]
rs6463008	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6945901	0.90[EUR][1000 genomes]
rs6946898	0.89[EUR][1000 genomes]
rs6951425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6958423	0.90[EUR][1000 genomes]
rs6971196	0.82[EUR][1000 genomes]
rs7384944	0.93[ASN][1000 genomes]
rs7790556	0.90[EUR][1000 genomes]
rs7805795	0.90[EUR][1000 genomes]
rs9632614	0.81[EUR][1000 genomes]
rs9632615	0.93[ASN][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	nsv1034605	chr7:41096638-41222426	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv887989	chr7:41125447-41337044	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1028983	chr7:41165668-41635954	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv3394436	chr7:41197327-41201125	ZNF genes & repeats Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:41189400-41222400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:41200200-41200400	ZNF genes & repeats	Muscle Satellite Cultured Cells	--

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