Variant report

Variant	rs1340125
Chromosome Location	chr1:210947787-210947788
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10465689	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10465690	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11119576	1.00[CHB][hapmap]
rs11119591	1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11119592	1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11119604	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1112999	1.00[CHB][hapmap]
rs1122901	1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12117136	1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12122556	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12122589	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12122593	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12122869	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12133838	0.87[ASN][1000 genomes]
rs12134429	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12134632	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12137464	1.00[CHB][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12139273	1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12139474	1.00[CHB][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12143524	1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12564968	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12566698	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12759150	1.00[CHB][hapmap]
rs1340124	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17188665	1.00[CHB][hapmap]
rs1934612	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1934613	1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1934614	0.90[EUR][1000 genomes]
rs2185384	1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3905343	1.00[CHB][hapmap]
rs4951462	1.00[CHB][hapmap];0.88[EUR][1000 genomes]
rs4951605	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56264689	0.90[EUR][1000 genomes]
rs56383511	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61829490	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61829492	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61829493	0.90[EUR][1000 genomes]
rs61829496	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61829499	0.90[EUR][1000 genomes]
rs6540621	1.00[CHB][hapmap]
rs6694502	0.90[EUR][1000 genomes]
rs6695591	1.00[CHB][hapmap]
rs73067497	0.87[ASN][1000 genomes]
rs73069504	0.87[ASN][1000 genomes]
rs73069505	0.87[ASN][1000 genomes]
rs73069563	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73069564	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73069573	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73069579	0.84[EUR][1000 genomes]
rs7519357	1.00[CHB][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7532333	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7541814	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7552646	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv873153	chr1:210900481-210994339	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv999018	chr1:210907239-210999306	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210941800-210978000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:210943000-210952800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr1:210944400-210965800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr1:210945000-210954800	Weak transcription	Brain Hippocampus Middle	brain
5	chr1:210946800-210965800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:210947000-210949600	Strong transcription	HSMMtube	muscle
7	chr1:210947200-210949800	Strong transcription	HSMM	muscle
8	chr1:210947400-210949200	Enhancers	Pancreatic Islets	Pancreatic Islet

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