Variant report

Variant	rs16919655
Chromosome Location	chr8:54810451-54810452
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	chr8:54799455..54801202-chr8:54809079..54811926,2	K562	blood:

Variant related genes	Relation type
ENSG00000244159	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11985444	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16919648	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16919650	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16919652	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16919653	0.93[ASN][1000 genomes]
rs16919658	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2128818	0.90[ASN][1000 genomes]
rs2128819	0.90[ASN][1000 genomes]
rs6473896	0.86[ASN][1000 genomes]
rs7005604	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73680353	0.90[ASN][1000 genomes]
rs73680356	0.93[ASN][1000 genomes]
rs7821073	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7821757	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7838182	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs936685	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021775	chr8:54631303-54827173	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv539621	chr8:54631303-54827173	Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1023983	chr8:54790309-55145770	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv539623	chr8:54790309-55145770	Bivalent Enhancer Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers 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	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:54798400-54814600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr8:54799400-54812200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr8:54799800-54812400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr8:54800400-54810600	Weak transcription	HMEC	breast
5	chr8:54803400-54817200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr8:54803800-54811600	Weak transcription	A549	lung
7	chr8:54804000-54816000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr8:54807000-54816200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr8:54807800-54813200	Weak transcription	NHLF	lung
10	chr8:54807800-54815800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr8:54808000-54810800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr8:54808000-54810800	Weak transcription	NHEK	skin
13	chr8:54808000-54816000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr8:54808800-54815000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr8:54809000-54811200	Weak transcription	Fetal Brain Female	brain
16	chr8:54809600-54818200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr8:54809800-54810600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr8:54809800-54810800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr8:54809800-54815200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr8:54810000-54810600	Enhancers	GM12878-XiMat	blood
21	chr8:54810000-54813200	Weak transcription	NHDF-Ad	bronchial
22	chr8:54810400-54810600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr8:54810400-54810600	Enhancers	Brain Anterior Caudate	brain
24	chr8:54810400-54810800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links