Variant report

Variant	rs7258659
Chromosome Location	chr19:55683977-55683978
allele	C/T
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:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:55683524..55688236-chr19:55723837..55729899,9	K562	blood:
2	chr19:55657471..55659943-chr19:55683212..55685599,2	K562	blood:
3	chr19:55683305..55685405-chr19:55969607..55972457,2	K562	blood:
4	chr19:55682890..55686413-chr19:55726859..55729575,3	K562	blood:
5	chr19:55682815..55684434-chr19:55902687..55904944,2	K562	blood:
6	chr19:55682875..55687636-chr19:55687850..55692874,6	MCF-7	breast:
7	chr19:55627139..55630124-chr19:55683805..55687284,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SYT5-1	chr19:55683946-55684461	NONHSAT068002

No data

Variant related genes	Relation type
ENSG00000063241	Chromatin interaction
ENSG00000129990	Chromatin interaction
ENSG00000125503	Chromatin interaction
ENSG00000105048	Chromatin interaction
ENSG00000267649	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs16986304	1.00[MEX][hapmap]
rs4252572	1.00[MEX][hapmap]
rs4545938	1.00[AMR][1000 genomes]
rs4806652	1.00[MEX][hapmap]
rs7258287	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73935315	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912453	chr19:55672007-55690398	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	esv1816335	chr19:55683977-55901099	Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:55679000-55684000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr19:55679400-55684000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr19:55679400-55684000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr19:55679400-55684000	Weak transcription	Hela-S3	cervix
5	chr19:55679400-55684000	Weak transcription	NHEK	skin
6	chr19:55682800-55684400	Enhancers	K562	blood
7	chr19:55683200-55684000	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr19:55683800-55684000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr19:55683800-55684000	Enhancers	HMEC	breast
10	chr19:55683800-55684000	Enhancers	NHLF	lung
11	chr19:55683800-55684000	Enhancers	Osteobl	bone
12	chr19:55683800-55684200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
13	chr19:55683800-55684200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr19:55683800-55684200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr19:55683800-55684200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr19:55683800-55684200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr19:55683800-55684200	Enhancers	HSMM	muscle
18	chr19:55683800-55684400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr19:55683800-55684400	Flanking Active TSS	NHDF-Ad	bronchial
20	chr19:55683800-55684800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr19:55683800-55685800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin

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