Variant report

Variant	rs6461862
Chromosome Location	chr7:25408671-25408672
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1002203	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1015497	0.90[EUR][1000 genomes]
rs10807824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11764103	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11769627	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11972231	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11981869	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12670448	1.00[ASN][1000 genomes]
rs12672062	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12700616	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12700617	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12700618	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12700619	0.90[EUR][1000 genomes]
rs12700620	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12700621	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12700623	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12700624	0.85[CHB][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12700625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12700628	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13221394	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13310680	0.91[EUR][1000 genomes]
rs1988282	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1988283	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2188993	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4134095	0.81[EUR][1000 genomes]
rs6461864	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6953741	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6964890	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7811651	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs929239	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs929240	0.87[AMR][1000 genomes];0.90[EUR][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	nsv606424	chr7:24982529-25466521	Genic enhancers Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv606426	chr7:25254125-25621579	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1016813	chr7:25405859-26150509	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
4	nsv538803	chr7:25405859-26150509	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25400200-25409400	Weak transcription	Pancreas	Pancrea
2	chr7:25400600-25409200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr7:25408000-25409600	Enhancers	Brain Hippocampus Middle	brain
4	chr7:25408200-25408800	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr7:25408200-25410000	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr7:25408400-25409400	Weak transcription	Ovary	ovary
7	chr7:25408400-25410000	Enhancers	Brain Germinal Matrix	brain

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