Variant report

Variant	rs1927839
Chromosome Location	chr13:29689187-29689188
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:29689122..29690909-chr21:43299184..43300698,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000141956	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1467690	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs167832	1.00[JPT][hapmap]
rs167834	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs1923518	1.00[JPT][hapmap]
rs2149325	0.81[EUR][1000 genomes]
rs226906	1.00[JPT][hapmap]
rs226909	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs2475513	1.00[JPT][hapmap]
rs2475516	1.00[JPT][hapmap]
rs2475517	1.00[JPT][hapmap]
rs2475522	1.00[JPT][hapmap]
rs2475527	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs2475528	0.85[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2475535	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2479768	1.00[GIH][hapmap]
rs2479772	1.00[JPT][hapmap]
rs2479777	1.00[JPT][hapmap]
rs2479780	1.00[JPT][hapmap]
rs2479783	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2479788	1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs326504	1.00[JPT][hapmap]
rs326512	1.00[JPT][hapmap]
rs326516	1.00[JPT][hapmap]
rs326523	1.00[JPT][hapmap]
rs4325394	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4769001	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4769671	1.00[JPT][hapmap]
rs4769679	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6490353	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6490354	1.00[CHB][hapmap];0.85[YRI][hapmap];0.88[ASN][1000 genomes]
rs7325000	1.00[JPT][hapmap]
rs7330567	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9508258	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533835	chr13:29141132-29962069	Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	esv3406145	chr13:29616606-29917459	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:29677200-29697800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr13:29684800-29692200	Weak transcription	Stomach Smooth Muscle	stomach
3	chr13:29686800-29692400	Weak transcription	Aorta	Aorta
4	chr13:29689000-29689800	Weak transcription	Fetal Heart	heart

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