Variant report

Variant	rs16823734
Chromosome Location	chr1:184977322-184977323
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:184975851..184978780-chr1:185012514..185014905,2	MCF-7	breast:
2	chr1:184977262..184980396-chr1:184986788..184988626,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RNF2-1	chr1:184976826-184977815	ENSG00000260976.1

Variant related genes	Relation type
ENSG00000121481	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10429841	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10489582	1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12023631	0.88[ASN][1000 genomes]
rs12024255	1.00[EUR][1000 genomes]
rs12026308	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12033761	1.00[CHB][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12037199	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12038977	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12041641	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12045533	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12062374	1.00[ASW][hapmap]
rs12240005	1.00[EUR][1000 genomes]
rs16823736	0.87[AMR][1000 genomes]
rs16823739	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2025228	1.00[EUR][1000 genomes]
rs2144664	0.92[CHB][hapmap];0.85[CHD][hapmap];0.88[JPT][hapmap];0.88[YRI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34769115	1.00[AMR][1000 genomes]
rs3737948	1.00[GIH][hapmap]
rs41377350	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs57266144	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61146985	0.90[AMR][1000 genomes]
rs61379702	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61537994	1.00[EUR][1000 genomes]
rs61573899	1.00[EUR][1000 genomes]
rs6662843	1.00[GIH][hapmap]
rs6698620	1.00[EUR][1000 genomes]
rs7540216	1.00[GIH][hapmap];1.00[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	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv525731	chr1:184812165-185038104	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv872585	chr1:184813885-184986725	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv872587	chr1:184820832-184986725	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:184977000-184977800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr1:184977000-184978400	Enhancers	Brain Germinal Matrix	brain
3	chr1:184977200-184978400	Enhancers	Pancreatic Islets	Pancreatic Islet

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