Variant report

Variant	rs60772140
Chromosome Location	chr15:39721134-39721135
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	chr15:39721051..39725636-chr15:39870055..39875310,7	MCF-7	breast:
2	chr15:39720867..39723371-chr15:39870394..39874925,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs58001045	1.00[AMR][1000 genomes]
rs58836677	1.00[AMR][1000 genomes]
rs59550930	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59611156	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59752089	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60077096	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60658485	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60729119	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60780722	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61052847	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61140941	1.00[AMR][1000 genomes]
rs61294562	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61583976	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393465	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393501	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73395320	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73395324	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73395336	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73395338	1.00[AMR][1000 genomes]
rs73395340	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73397317	1.00[AMR][1000 genomes]
rs73397334	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73397367	1.00[AMR][1000 genomes]
rs8028168	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1042824	chr15:39676039-39757222	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv542362	chr15:39676039-39757222	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1052908	chr15:39692049-39750193	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1044082	chr15:39693241-39750193	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1036091	chr15:39699841-39750193	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39712600-39724200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr15:39713000-39721800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr15:39713200-39727400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:39719000-39721600	Enhancers	Fetal Lung	lung
5	chr15:39719200-39721200	Enhancers	HepG2	liver
6	chr15:39719200-39723200	Enhancers	Left Ventricle	heart
7	chr15:39719200-39728200	Enhancers	HUVEC	blood vessel
8	chr15:39719400-39723400	Enhancers	Primary hematopoietic stem cells	blood
9	chr15:39719400-39726800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr15:39719600-39722000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:39719600-39723400	Enhancers	Fetal Thymus	thymus
12	chr15:39719600-39724200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr15:39719600-39725000	Weak transcription	Right Ventricle	heart
14	chr15:39719600-39727200	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr15:39719800-39721200	Enhancers	Fetal Intestine Large	intestine
16	chr15:39719800-39722400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr15:39719800-39725000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:39720000-39721400	Enhancers	Stomach Smooth Muscle	stomach
19	chr15:39720000-39721600	Weak transcription	NHEK	skin
20	chr15:39720000-39721800	Enhancers	GM12878-XiMat	blood
21	chr15:39720000-39722000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr15:39720000-39722000	Weak transcription	HSMMtube	muscle
23	chr15:39720000-39722200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr15:39720000-39722200	Weak transcription	Right Atrium	heart
25	chr15:39720000-39723800	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr15:39720000-39724200	Enhancers	Thymus	Thymus
27	chr15:39720200-39721600	Weak transcription	Osteobl	bone
28	chr15:39720200-39721800	Weak transcription	Fetal Heart	heart
29	chr15:39720200-39721800	Weak transcription	K562	blood
30	chr15:39720200-39722000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr15:39720200-39722000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr15:39720200-39722000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:39720200-39722000	Weak transcription	Fetal Muscle Leg	muscle
34	chr15:39720200-39722000	Weak transcription	HSMM	muscle
35	chr15:39720200-39722200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:39720200-39722200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr15:39720200-39722200	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr15:39720200-39722200	Weak transcription	NHDF-Ad	bronchial
39	chr15:39720200-39723200	Enhancers	Primary T cells from cord blood	blood
40	chr15:39720200-39723800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr15:39720200-39723800	Weak transcription	Colon Smooth Muscle	Colon
42	chr15:39720200-39723800	Enhancers	Monocytes-CD14+_RO01746	blood
43	chr15:39720200-39724000	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr15:39720200-39725000	Weak transcription	Fetal Muscle Trunk	muscle
45	chr15:39720200-39725000	Weak transcription	Fetal Stomach	stomach
46	chr15:39720200-39725600	Weak transcription	Lung	lung
47	chr15:39720200-39726800	Weak transcription	Adipose Nuclei	Adipose
48	chr15:39720400-39722000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr15:39720400-39722000	Weak transcription	NHLF	lung
50	chr15:39720400-39722200	Weak transcription	Placenta Amnion	Placenta Amnion

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