Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:139694413..139697640-chr6:140180486..140183496,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HECA-2	chr6:140180422-140181608	NONHSAT115258

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11963806	1.00[ASN][1000 genomes]
rs12110570	1.00[ASN][1000 genomes]
rs2144165	1.00[ASN][1000 genomes]
rs2179995	1.00[CEU][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2179996	1.00[ASN][1000 genomes]
rs2207334	1.00[ASN][1000 genomes]
rs3001016	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3015438	1.00[ASN][1000 genomes]
rs3918473	1.00[ASN][1000 genomes]
rs3946063	1.00[ASN][1000 genomes]
rs4403279	1.00[ASN][1000 genomes]
rs6570383	0.87[CEU][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6900161	1.00[ASN][1000 genomes]
rs6900843	1.00[ASN][1000 genomes]
rs6912157	1.00[ASN][1000 genomes]
rs6917570	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6917808	1.00[ASN][1000 genomes]
rs6939887	1.00[ASN][1000 genomes]
rs72986790	1.00[ASN][1000 genomes]
rs7743495	1.00[ASN][1000 genomes]
rs7745714	1.00[ASN][1000 genomes]
rs7746560	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7750105	1.00[ASN][1000 genomes]
rs7761684	1.00[ASN][1000 genomes]
rs7762012	1.00[ASN][1000 genomes]
rs7768688	1.00[ASN][1000 genomes]
rs7775904	1.00[ASN][1000 genomes]
rs9376470	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399296	1.00[ASN][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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140173400-140182200	Enhancers	Rectal Smooth Muscle	rectum
2	chr6:140174600-140187000	Weak transcription	Psoas Muscle	Psoas
3	chr6:140175800-140183600	Weak transcription	NHDF-Ad	bronchial
4	chr6:140178600-140184000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr6:140179800-140181600	Enhancers	Colon Smooth Muscle	Colon
6	chr6:140179800-140185200	Weak transcription	Fetal Intestine Small	intestine

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