Variant report

Variant	rs2572402
Chromosome Location	chr8:11184890-11184891
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF7L2	chr8:11184726-11185039	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:11170423..11173089-chr8:11183633..11185692,2	K562	blood:
2	chr8:11140705..11143665-chr8:11184811..11187065,2	K562	blood:

Variant related genes	Relation type
SLC35G5	TF binding region
ENSG00000246477	TF binding region
ENSG00000104643	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1369366	1.00[AMR][1000 genomes]
rs1369367	1.00[AMR][1000 genomes]
rs1435281	1.00[AMR][1000 genomes]
rs1529855	1.00[AMR][1000 genomes]
rs2043511	1.00[AMR][1000 genomes]
rs2060464	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2117614	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2572396	1.00[AMR][1000 genomes]
rs2572424	1.00[AMR][1000 genomes]
rs2572425	1.00[AMR][1000 genomes]
rs2572427	1.00[AMR][1000 genomes]
rs2736257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2736259	1.00[AMR][1000 genomes]
rs2736260	1.00[AMR][1000 genomes]
rs2736263	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2736271	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2736383	1.00[AMR][1000 genomes]
rs55731352	1.00[AMR][1000 genomes]
rs61251909	1.00[AMR][1000 genomes]
rs73665041	1.00[AMR][1000 genomes]
rs73665047	1.00[AMR][1000 genomes]
rs978148	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035072	chr8:10819444-11480692	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv539473	chr8:10819444-11480692	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv529399	chr8:10970091-11805960	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	nsv831233	chr8:11046854-11234384	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1022525	chr8:11066191-11309356	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv539474	chr8:11066191-11309356	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
7	nsv1033312	chr8:11126800-11252170	Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
8	esv1821756	chr8:11169178-11217587	Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
9	nsv890354	chr8:11176147-11266131	Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
10	esv34097	chr8:11177372-11489894	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:11167400-11185200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr8:11170600-11185400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr8:11171600-11191400	Weak transcription	Psoas Muscle	Psoas
4	chr8:11175400-11185000	Weak transcription	Small Intestine	intestine
5	chr8:11176000-11185600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr8:11176000-11187800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr8:11176000-11189000	Weak transcription	Gastric	stomach
8	chr8:11176600-11187000	Weak transcription	Colonic Mucosa	Colon
9	chr8:11177800-11185000	Weak transcription	NH-A	brain
10	chr8:11178200-11186000	Weak transcription	Fetal Intestine Small	intestine
11	chr8:11178200-11186400	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr8:11178600-11186800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr8:11178800-11186200	Weak transcription	Fetal Heart	heart
14	chr8:11179000-11185400	Weak transcription	Fetal Lung	lung
15	chr8:11179400-11187600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr8:11179600-11186200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr8:11179800-11186400	Weak transcription	Brain Germinal Matrix	brain
18	chr8:11179800-11188000	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr8:11180400-11185000	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr8:11180400-11185000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr8:11180600-11185200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr8:11180600-11185400	Weak transcription	Brain Angular Gyrus	brain
23	chr8:11180600-11185800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr8:11180600-11185800	Weak transcription	Fetal Muscle Leg	muscle
25	chr8:11180600-11186000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr8:11180600-11187000	Weak transcription	Lung	lung
27	chr8:11180600-11190200	Weak transcription	A549	lung
28	chr8:11180800-11185000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr8:11180800-11185000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr8:11180800-11185400	Weak transcription	Colon Smooth Muscle	Colon
31	chr8:11181000-11185200	Weak transcription	Placenta	Placenta
32	chr8:11181600-11186600	Weak transcription	Primary B cells from peripheral blood	blood
33	chr8:11182000-11185000	Weak transcription	GM12878-XiMat	blood
34	chr8:11182200-11186600	Weak transcription	Fetal Brain Female	brain
35	chr8:11182400-11188800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr8:11182400-11193600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr8:11182600-11185200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr8:11182600-11186800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr8:11182600-11188800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr8:11182800-11186600	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr8:11182800-11187600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr8:11183000-11185000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr8:11183000-11185000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr8:11183000-11185000	Weak transcription	Adipose Nuclei	Adipose
45	chr8:11183000-11185000	Weak transcription	Esophagus	oesophagus
46	chr8:11183000-11185200	Weak transcription	Fetal Stomach	stomach
47	chr8:11183000-11185600	Weak transcription	Spleen	Spleen
48	chr8:11183000-11186000	Weak transcription	Fetal Thymus	thymus
49	chr8:11183000-11186200	Weak transcription	Fetal Muscle Trunk	muscle
50	chr8:11183000-11186400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links