Variant report

Variant	rs28676627
Chromosome Location	chr4:102277743-102277744
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:102277040..102279542-chr4:102281591..102284231,2	MCF-7	breast:
2	chr4:102269774..102272032-chr4:102277264..102279804,2	K562	blood:
3	chr4:102277055..102279316-chr4:102287621..102289577,3	MCF-7	breast:
4	chr4:102276355..102278194-chr4:102281593..102284291,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10012035	1.00[AFR][1000 genomes]
rs10023325	1.00[AFR][1000 genomes]
rs28452473	1.00[AFR][1000 genomes]
rs28503426	1.00[AFR][1000 genomes]
rs28552423	1.00[AFR][1000 genomes]
rs28555533	1.00[AFR][1000 genomes]
rs28570279	1.00[AFR][1000 genomes]
rs28594741	1.00[AFR][1000 genomes]
rs28635484	0.81[AFR][1000 genomes]
rs28667992	1.00[AFR][1000 genomes]
rs28701140	1.00[AFR][1000 genomes]
rs28845882	1.00[AFR][1000 genomes]
rs72918879	1.00[AFR][1000 genomes]
rs72930826	0.93[AFR][1000 genomes]
rs72930850	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv879676	chr4:102202285-102340930	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102270000-102280800	Weak transcription	Aorta	Aorta
2	chr4:102275400-102278400	Enhancers	Primary B cells from peripheral blood	blood
3	chr4:102276200-102278400	Enhancers	Sigmoid Colon	Sigmoid Colon
4	chr4:102276200-102279200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:102276600-102278600	Enhancers	Ovary	ovary
6	chr4:102276600-102279200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:102277000-102277800	Enhancers	Muscle Satellite Cultured Cells	--
8	chr4:102277000-102277800	Enhancers	NHDF-Ad	bronchial
9	chr4:102277000-102278400	Enhancers	Small Intestine	intestine
10	chr4:102277000-102278400	Enhancers	Stomach Mucosa	stomach
11	chr4:102277000-102279200	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr4:102277000-102279200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr4:102277000-102279200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr4:102277000-102279200	Enhancers	HSMM	muscle
15	chr4:102277000-102279200	Enhancers	HUVEC	blood vessel
16	chr4:102277200-102278000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:102277200-102278000	Flanking Active TSS	NH-A	brain
18	chr4:102277200-102278000	Flanking Active TSS	Osteobl	bone
19	chr4:102277200-102278200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr4:102277200-102278200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr4:102277200-102278200	Flanking Active TSS	HepG2	liver
22	chr4:102277200-102278200	Flanking Active TSS	HMEC	breast
23	chr4:102277200-102278200	Flanking Active TSS	NHEK	skin
24	chr4:102277200-102278400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr4:102277200-102278400	Enhancers	Duodenum Smooth Muscle	Duodenum
26	chr4:102277200-102278400	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr4:102277200-102278600	Enhancers	Fetal Intestine Small	intestine
28	chr4:102277200-102279200	Enhancers	Placenta	Placenta
29	chr4:102277200-102279200	Enhancers	HSMMtube	muscle
30	chr4:102277200-102279400	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr4:102277200-102279400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr4:102277200-102279400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr4:102277400-102277800	Enhancers	GM12878-XiMat	blood
34	chr4:102277400-102278000	Enhancers	iPS-20b Cell Line	embryonic stem cell
35	chr4:102277400-102278000	Enhancers	Duodenum Mucosa	Duodenum
36	chr4:102277400-102278200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr4:102277400-102278200	Enhancers	Stomach Smooth Muscle	stomach
38	chr4:102277600-102277800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr4:102277600-102277800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr4:102277600-102277800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr4:102277600-102277800	Enhancers	Hela-S3	cervix
42	chr4:102277600-102277800	Enhancers	NHLF	lung
43	chr4:102277600-102278000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr4:102277600-102278000	Active TSS	A549	lung
45	chr4:102277600-102278400	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr4:102277600-102278600	Enhancers	Fetal Intestine Large	intestine
47	chr4:102277600-102278800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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