Variant report

Variant	rs2659550
Chromosome Location	chr4:102062508-102062509
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs2135613	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2659536	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2659547	0.82[EUR][1000 genomes]
rs2695206	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2732506	0.97[ASN][1000 genomes]
rs2732516	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2850977	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28791227	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6820738	0.83[ASN][1000 genomes]
rs963065	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102026200-102068600	Weak transcription	Primary T cells from cord blood	blood
2	chr4:102049200-102064800	Weak transcription	HMEC	breast
3	chr4:102057600-102062800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr4:102057600-102063400	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr4:102058400-102063200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr4:102058600-102063400	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr4:102059400-102076600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr4:102059800-102065200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr4:102060800-102062800	Enhancers	A549	lung
10	chr4:102061400-102062800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr4:102061400-102062800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:102061400-102062800	Enhancers	Primary B cells from cord blood	blood
13	chr4:102061400-102063000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr4:102061400-102064800	Enhancers	Primary B cells from peripheral blood	blood
15	chr4:102061600-102062800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr4:102061600-102062800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr4:102061600-102063200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr4:102061600-102063400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr4:102061600-102063600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr4:102061800-102062800	Enhancers	NHEK	skin
21	chr4:102061800-102063600	Enhancers	Primary hematopoietic stem cells	blood
22	chr4:102061800-102064600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr4:102062000-102063200	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr4:102062200-102062600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:102062200-102062600	Enhancers	Left Ventricle	heart
26	chr4:102062200-102063000	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr4:102062400-102062600	Flanking Active TSS	GM12878-XiMat	blood
28	chr4:102062400-102063200	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr4:102062400-102063600	Enhancers	Monocytes-CD14+_RO01746	blood

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