Variant report

Variant	rs55905129
Chromosome Location	chr4:120318838-120318839
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10003953	1.00[AMR][1000 genomes]
rs10010097	1.00[AMR][1000 genomes]
rs10012406	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10015714	1.00[AMR][1000 genomes]
rs10015999	1.00[AMR][1000 genomes]
rs10021318	1.00[AMR][1000 genomes]
rs10023384	1.00[AMR][1000 genomes]
rs10027735	1.00[AMR][1000 genomes]
rs10028634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10029882	1.00[AMR][1000 genomes]
rs10031328	1.00[AMR][1000 genomes]
rs10032392	1.00[AMR][1000 genomes]
rs10213498	1.00[AMR][1000 genomes]
rs10471013	1.00[AMR][1000 genomes]
rs11098518	1.00[AFR][1000 genomes]
rs11098519	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11098520	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28380652	1.00[AMR][1000 genomes]
rs28399227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28405434	1.00[AMR][1000 genomes]
rs28436005	1.00[AMR][1000 genomes]
rs28450144	1.00[AMR][1000 genomes]
rs28461667	1.00[AMR][1000 genomes]
rs28469881	1.00[AMR][1000 genomes]
rs28535588	1.00[AMR][1000 genomes]
rs28576329	1.00[AMR][1000 genomes]
rs28590285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28615474	1.00[AMR][1000 genomes]
rs28619175	0.93[AFR][1000 genomes]
rs28622207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28634062	1.00[AMR][1000 genomes]
rs28639494	1.00[AMR][1000 genomes]
rs28639769	1.00[AMR][1000 genomes]
rs28651206	1.00[AMR][1000 genomes]
rs28654414	1.00[AMR][1000 genomes]
rs28665114	1.00[AMR][1000 genomes]
rs28669906	1.00[AMR][1000 genomes]
rs28709577	1.00[AMR][1000 genomes]
rs28736368	1.00[AMR][1000 genomes]
rs28864814	1.00[AMR][1000 genomes]
rs28870820	1.00[AMR][1000 genomes]
rs3872804	1.00[AMR][1000 genomes]
rs56191916	1.00[AMR][1000 genomes]
rs57295141	1.00[AMR][1000 genomes]
rs57469640	0.93[AFR][1000 genomes]
rs57516186	1.00[AMR][1000 genomes]
rs58691470	0.93[AFR][1000 genomes]
rs59116083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61729464	1.00[AMR][1000 genomes]
rs61823285	1.00[AMR][1000 genomes]
rs72918555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72918590	1.00[AMR][1000 genomes]
rs72918597	1.00[AMR][1000 genomes]
rs72920607	1.00[AMR][1000 genomes]
rs72920619	1.00[AMR][1000 genomes]
rs72920685	1.00[AMR][1000 genomes]
rs9307478	1.00[AMR][1000 genomes]
rs9884290	1.00[AMR][1000 genomes]
rs9884542	1.00[AMR][1000 genomes]
rs9993996	1.00[AMR][1000 genomes]
rs9996803	1.00[AMR][1000 genomes]
rs9997423	1.00[AMR][1000 genomes]
rs9998244	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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	nsv1012868	chr4:120014630-120464880	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv537232	chr4:120014630-120464880	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv428769	chr4:120205572-120363323	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv879841	chr4:120244085-120388406	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv879842	chr4:120244085-120424087	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv427694	chr4:120250511-120501728	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	esv2538163	chr4:120252854-120388678	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv967791	chr4:120316592-120323446	Enhancers Weak transcription	TF binding region	1 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	chr4:120317600-120325600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:120318000-120333400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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