Variant report

Variant	rs55638658
Chromosome Location	chr15:101233236-101233237
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:101233199..101235497-chr15:101238362..101240126,3	MCF-7	breast:
2	chr15:101233072..101233771-chr3:69081230..69082094,2	MCF-7	breast:
3	chr15:101231450..101234223-chr15:101234280..101236006,2	K562	blood:
4	chr15:101231914..101237076-chr15:101257111..101265405,9	MCF-7	breast:
5	chr15:101219784..101225094-chr15:101230849..101233810,4	MCF-7	breast:
6	chr15:101231019..101240616-chr15:101240673..101249356,17	MCF-7	breast:
7	chr15:101232441..101234250-chr15:101235794..101238360,2	MCF-7	breast:
8	chr15:101231505..101237209-chr15:101260061..101264021,7	MCF-7	breast:
9	chr15:101231943..101235577-chr15:101245760..101248347,3	MCF-7	breast:
10	chr15:101231686..101233755-chr15:101418430..101419968,2	MCF-7	breast:
11	chr15:101229143..101236380-chr15:101251077..101259543,23	MCF-7	breast:
12	chr15:101231392..101235573-chr15:101235586..101239942,7	MCF-7	breast:
13	chr15:101232795..101236693-chr15:101389790..101392964,4	MCF-7	breast:
14	chr15:101232668..101235322-chr15:101250994..101252780,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000272808	Chromatin interaction
ENSG00000232386	Chromatin interaction
ENSG00000184254	Chromatin interaction
ENSG00000259579	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1561813	0.91[ASN][1000 genomes]
rs1561814	0.90[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1565749	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1689954	0.91[ASN][1000 genomes]
rs1689955	0.91[ASN][1000 genomes]
rs2920042	0.91[ASN][1000 genomes]
rs55645235	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56791138	0.84[EUR][1000 genomes]
rs57230976	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs57924834	0.90[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs59491836	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60807298	1.00[ASN][1000 genomes]
rs61564960	0.94[AFR][1000 genomes]
rs744766	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs747327	0.80[EUR][1000 genomes]
rs894322	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530686	chr15:100388548-101244448	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active 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	36 gene(s)	inside rSNPs	n/a
2	nsv870422	chr15:100460234-101401019	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	n/a
3	nsv1050155	chr15:100764638-101320462	Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	n/a
4	nsv542533	chr15:100764638-101320462	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	n/a
5	nsv1041172	chr15:100975213-101602839	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers 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	53 gene(s)	inside rSNPs	n/a
6	nsv1050199	chr15:100977525-101607280	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
7	nsv542536	chr15:100977525-101607280	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
8	esv3446550	chr15:100983111-101616198	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
9	nsv530850	chr15:100988191-101602641	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats 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	53 gene(s)	inside rSNPs	n/a
10	nsv1043180	chr15:100989328-101585798	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer 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	52 gene(s)	inside rSNPs	n/a
11	nsv542537	chr15:100989328-101585798	Enhancers Weak transcription Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	n/a
12	nsv1043341	chr15:100989328-101606657	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
13	nsv542538	chr15:100989328-101606657	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
14	nsv530687	chr15:100996096-101609980	Weak transcription Bivalent Enhancer Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
15	nsv534423	chr15:100996096-101645331	Genic enhancers ZNF genes & repeats Bivalent Enhancer Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	n/a
16	nsv948464	chr15:101002346-101610336	ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
17	nsv949361	chr15:101002738-101595898	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
18	nsv817593	chr15:101012299-101602641	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	n/a
19	nsv530851	chr15:101042563-101627479	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	n/a
20	nsv916934	chr15:101055749-101585912	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	n/a
21	nsv948385	chr15:101120963-101387029	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	n/a
22	nsv1043985	chr15:101156747-101436615	Active TSS Genic enhancers Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	n/a
23	nsv1049749	chr15:101178550-101376368	Genic enhancers Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
24	nsv542539	chr15:101178550-101376368	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
25	nsv1052636	chr15:101227885-101585798	Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	n/a
26	nsv528937	chr15:101229784-101304166	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a
27	nsv833108	chr15:101232683-101408785	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:101228400-101233600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr15:101228600-101233600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr15:101228600-101233600	Weak transcription	NHEK	skin
4	chr15:101228600-101234600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr15:101228800-101233600	Weak transcription	Esophagus	oesophagus
6	chr15:101229000-101234000	Weak transcription	Ovary	ovary
7	chr15:101229200-101233600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:101229400-101234800	Weak transcription	NHDF-Ad	bronchial
9	chr15:101230000-101233800	Weak transcription	Right Atrium	heart
10	chr15:101231000-101233800	Weak transcription	Adipose Nuclei	Adipose
11	chr15:101231600-101234000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr15:101231800-101234200	Weak transcription	Fetal Muscle Leg	muscle
13	chr15:101232400-101235000	Enhancers	Fetal Muscle Trunk	muscle
14	chr15:101232600-101235800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr15:101232800-101235000	Enhancers	Lung	lung
16	chr15:101233000-101233600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr15:101233200-101233400	Enhancers	Spleen	Spleen
18	chr15:101233200-101234400	Weak transcription	Osteobl	bone
19	chr15:101233200-101234800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:101233200-101235000	Enhancers	Pancreas	Pancrea

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