Variant report

Variant	rs6878038
Chromosome Location	chr5:106471708-106471709
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10043144	0.81[ASN][1000 genomes]
rs10043242	0.90[ASN][1000 genomes]
rs10060196	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1030172	0.90[ASN][1000 genomes]
rs1030173	0.90[ASN][1000 genomes]
rs1030174	0.90[ASN][1000 genomes]
rs10479394	0.80[ASN][1000 genomes]
rs10515368	0.89[ASN][1000 genomes]
rs10900898	0.92[ASN][1000 genomes]
rs11242625	0.85[ASN][1000 genomes]
rs11242626	0.83[ASN][1000 genomes]
rs11242627	0.93[ASN][1000 genomes]
rs1159078	0.80[ASN][1000 genomes]
rs11749835	0.84[ASN][1000 genomes]
rs11949192	0.83[ASN][1000 genomes]
rs11960038	0.83[ASN][1000 genomes]
rs12522490	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12522515	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12658379	0.86[ASN][1000 genomes]
rs1345637	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1363311	0.86[EUR][1000 genomes]
rs1363313	0.80[ASN][1000 genomes]
rs1549175	0.83[ASN][1000 genomes]
rs17384663	0.86[ASN][1000 genomes]
rs17386596	0.85[ASN][1000 genomes]
rs1833606	0.91[ASN][1000 genomes]
rs1990908	0.89[ASN][1000 genomes]
rs2161234	0.85[ASN][1000 genomes]
rs2410933	0.85[ASN][1000 genomes]
rs2410935	0.83[ASN][1000 genomes]
rs2410938	0.83[ASN][1000 genomes]
rs2410939	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2410940	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2410941	0.82[ASN][1000 genomes]
rs2410942	0.93[ASN][1000 genomes]
rs2410943	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2410944	0.93[ASN][1000 genomes]
rs2410945	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2410946	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2410947	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2410948	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2410949	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2410951	0.92[ASN][1000 genomes]
rs2410952	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2898604	0.89[ASN][1000 genomes]
rs35814230	0.81[ASN][1000 genomes]
rs4143065	0.90[EUR][1000 genomes]
rs4245993	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4429838	0.80[ASN][1000 genomes]
rs4557390	0.80[ASN][1000 genomes]
rs4572985	0.86[EUR][1000 genomes]
rs4631165	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4637535	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4957530	0.83[ASN][1000 genomes]
rs4957531	0.91[ASN][1000 genomes]
rs4957685	0.80[ASN][1000 genomes]
rs4957687	0.89[ASN][1000 genomes]
rs4957688	0.92[ASN][1000 genomes]
rs4957690	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55689542	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6596717	0.83[ASN][1000 genomes]
rs6596719	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6596720	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6596721	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6596722	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6596730	0.86[EUR][1000 genomes]
rs6862257	0.91[ASN][1000 genomes]
rs6862498	0.90[ASN][1000 genomes]
rs6864971	0.80[ASN][1000 genomes]
rs6865431	0.93[ASN][1000 genomes]
rs6866458	0.83[ASN][1000 genomes]
rs6870023	0.81[ASN][1000 genomes]
rs6871050	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6871532	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6881511	0.87[EUR][1000 genomes]
rs6884885	0.82[ASN][1000 genomes]
rs6885021	0.83[ASN][1000 genomes]
rs6887291	0.83[ASN][1000 genomes]
rs6888773	0.90[EUR][1000 genomes]
rs6892104	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6895080	0.92[ASN][1000 genomes]
rs7706390	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7710297	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7710569	0.90[EUR][1000 genomes]
rs7710595	0.89[ASN][1000 genomes]
rs7716820	0.93[ASN][1000 genomes]
rs7733658	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7736860	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv823170	chr5:106326293-106673695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv599332	chr5:106403516-106502006	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2752056	chr5:106422649-106563101	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106469600-106472400	Enhancers	HUVEC	blood vessel
2	chr5:106471200-106476400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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