Variant report

Variant	rs2899037
Chromosome Location	chr4:56457347-56457348
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10002541	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs10005989	0.87[CEU][hapmap];0.95[YRI][hapmap];0.81[EUR][1000 genomes]
rs10009593	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10016506	0.89[CHB][hapmap];0.81[EUR][1000 genomes]
rs10026692	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10034433	0.85[EUR][1000 genomes]
rs1011095	0.89[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.92[YRI][hapmap]
rs11133379	0.88[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap]
rs11133383	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.88[YRI][hapmap]
rs11133399	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes]
rs11133404	0.94[CHB][hapmap]
rs11726609	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs11735267	0.89[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs11931061	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap]
rs11935806	0.88[CHB][hapmap]
rs11939815	0.89[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs12499623	0.94[CHB][hapmap]
rs12512220	0.94[CHB][hapmap]
rs12647592	0.83[ASN][1000 genomes]
rs13102385	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap]
rs13121235	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap]
rs1522106	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs1522111	0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap]
rs17085889	0.81[EUR][1000 genomes]
rs1873092	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2130036	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2177127	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs2177129	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap]
rs2412646	0.89[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap]
rs2412663	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28377791	0.84[EUR][1000 genomes]
rs28434169	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28445925	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28448438	0.82[EUR][1000 genomes]
rs28469692	0.84[EUR][1000 genomes]
rs28514423	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs28525309	0.82[EUR][1000 genomes]
rs28572116	0.85[EUR][1000 genomes]
rs28582059	0.82[EUR][1000 genomes]
rs28670674	0.83[EUR][1000 genomes]
rs28673496	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28713343	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28790098	0.81[EUR][1000 genomes]
rs3736544	0.89[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs3805147	0.88[CEU][hapmap]
rs3805154	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs3817444	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs4580704	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs473005	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs480479	0.89[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.92[YRI][hapmap]
rs4865008	0.83[EUR][1000 genomes]
rs4865010	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs4865018	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs59804446	0.87[EUR][1000 genomes]
rs60992571	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61072181	0.82[EUR][1000 genomes]
rs6554286	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.80[EUR][1000 genomes]
rs6554292	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6811520	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs6812042	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs6815516	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap];0.81[EUR][1000 genomes]
rs6817663	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6824955	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs6827359	0.94[CHB][hapmap]
rs6829182	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6832769	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs6837710	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs6850524	1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[YRI][hapmap]
rs6851838	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[YRI][hapmap];0.85[EUR][1000 genomes]
rs6853192	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs726967	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes]
rs7660054	0.88[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap]
rs7660808	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7667849	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs7673908	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap];0.81[EUR][1000 genomes]
rs7680941	0.94[CHB][hapmap]
rs7684810	0.80[CEU][hapmap];0.94[CHB][hapmap]
rs9312662	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs9312664	0.94[CHB][hapmap]
rs9684708	0.87[EUR][1000 genomes]
rs9997288	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs9998038	0.81[EUR][1000 genomes]
rs9998146	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328582	chr4:56164136-56486156	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
3	nsv10496	chr4:56336946-56841137	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	nsv998179	chr4:56425126-56694339	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv932636	chr4:56438618-56667329	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr4:56441200-56464400	Weak transcription	K562	blood
2	chr4:56456200-56458400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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