Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:119988837..119992890-chr4:120132998..120134761,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-455G16.1.1-2	chr4:119990479-119991452	ENSG00000249356

Variant related genes	Relation type
ENSG00000178636	Chromatin interaction
ENSG00000145390	Chromatin interaction

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10017724	0.85[ASN][1000 genomes]
rs10020899	0.87[ASN][1000 genomes]
rs10021107	0.86[CEU][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs1047894	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10518309	0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs1058449	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs1058451	0.87[ASN][1000 genomes]
rs1459063	0.87[ASN][1000 genomes]
rs17050104	0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs17050108	0.86[CEU][hapmap]
rs17050116	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17050123	0.87[ASN][1000 genomes]
rs17265233	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs17330453	0.92[CEU][hapmap]
rs28411116	0.87[ASN][1000 genomes]
rs28493971	0.99[EUR][1000 genomes]
rs28560056	0.99[EUR][1000 genomes]
rs3756153	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs62326862	0.88[EUR][1000 genomes]
rs62328679	0.87[ASN][1000 genomes]
rs62328715	0.81[EUR][1000 genomes]
rs6837925	0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs6843548	0.80[ASN][1000 genomes]
rs72908513	0.87[ASN][1000 genomes]
rs9998313	0.85[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]

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	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv948802	chr4:119844269-120208926	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv980252	chr4:119990321-119991637	Enhancers Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119967400-119994000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr4:119975800-119994000	Weak transcription	Right Ventricle	heart
3	chr4:119975800-120003000	Weak transcription	Left Ventricle	heart
4	chr4:119979200-119996400	Weak transcription	Aorta	Aorta
5	chr4:119980600-119994000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:119988800-119992200	Enhancers	HepG2	liver
7	chr4:119988800-119992600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:119989200-119992600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr4:119989400-119992400	Enhancers	HMEC	breast
10	chr4:119989600-119992800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr4:119989800-119991600	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr4:119989800-119991800	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr4:119990000-119991600	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr4:119990000-119992800	Enhancers	NHEK	skin
15	chr4:119990200-119992200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr4:119990400-119991400	Weak transcription	A549	lung
17	chr4:119990400-119991600	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr4:119990400-119994200	Weak transcription	Colon Smooth Muscle	Colon
19	chr4:119990800-119991400	Enhancers	Esophagus	oesophagus
20	chr4:119990800-119991400	Enhancers	Placenta	Placenta
21	chr4:119990800-119991800	Enhancers	Placenta Amnion	Placenta Amnion
22	chr4:119991000-119991400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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