Variant report

Variant	rs2389878
Chromosome Location	chr4:120557268-120557269
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10012485	1.00[CHB][hapmap]
rs10013852	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10021469	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10022664	1.00[CHB][hapmap]
rs10434030	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10434031	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10434032	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10434033	0.82[ASN][1000 genomes]
rs10518332	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10518333	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10518335	1.00[CHB][hapmap]
rs12331661	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12646525	1.00[CHB][hapmap]
rs13119104	1.00[YRI][hapmap]
rs13125819	1.00[YRI][hapmap]
rs17005698	0.92[YRI][hapmap]
rs17007472	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17051276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17051278	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17355550	1.00[CEU][hapmap]
rs17357002	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17359764	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17359910	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17360333	0.90[EUR][1000 genomes]
rs1962195	0.82[ASN][1000 genomes]
rs2248236	1.00[CHB][hapmap]
rs2256645	0.91[YRI][hapmap]
rs2389863	1.00[CHB][hapmap]
rs2389865	0.83[YRI][hapmap]
rs2389866	1.00[CHB][hapmap]
rs2389869	1.00[CHB][hapmap]
rs2389871	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs2389872	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2389876	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2389877	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2389883	0.82[ASN][1000 genomes]
rs2389884	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2389891	0.82[ASN][1000 genomes]
rs2389892	0.82[ASN][1000 genomes]
rs2622497	0.91[YRI][hapmap]
rs2622499	1.00[CHB][hapmap]
rs2715020	0.91[YRI][hapmap]
rs2715021	0.83[YRI][hapmap]
rs2928991	1.00[YRI][hapmap]
rs2953290	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2953292	0.91[YRI][hapmap]
rs2953294	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3109370	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs3733526	1.00[CHB][hapmap]
rs3756154	1.00[CHB][hapmap]
rs3756157	1.00[CHB][hapmap]
rs4102980	0.82[EUR][1000 genomes]
rs4146266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4264816	0.91[YRI][hapmap]
rs4597811	1.00[CHB][hapmap]
rs4833621	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58613543	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58735454	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59225699	0.82[ASN][1000 genomes]
rs6534145	1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6534146	1.00[CHB][hapmap]
rs6534148	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6831062	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6845402	0.91[YRI][hapmap]
rs6847164	1.00[CHB][hapmap]
rs6854072	0.96[AFR][1000 genomes]
rs72922580	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72922588	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72922598	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72924305	0.82[ASN][1000 genomes]
rs72924312	0.82[ASN][1000 genomes]
rs7665086	0.83[YRI][hapmap]
rs7670921	1.00[CHB][hapmap]
rs7671191	0.82[ASN][1000 genomes]
rs7672961	1.00[CHB][hapmap]
rs7684853	0.82[ASN][1000 genomes]
rs7684899	1.00[CHB][hapmap]
rs8180145	0.85[ASN][1000 genomes]
rs8180147	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs9307480	0.84[AFR][1000 genomes]
rs9991735	0.82[ASN][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	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv532739	chr4:120392824-121098103	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv1010753	chr4:120429028-120684310	Bivalent/Poised TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv537233	chr4:120429028-120684310	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1006572	chr4:120432494-120694243	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:120552400-120558600	Weak transcription	Fetal Stomach	stomach
2	chr4:120554000-120559400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr4:120554000-120559400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr4:120554000-120559400	Weak transcription	NHLF	lung
5	chr4:120554200-120557400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr4:120554200-120559400	Weak transcription	Osteobl	bone

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