Variant report

Variant	rs10025704
Chromosome Location	chr4:88128344-88128345
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:88125915..88129051-chr4:88140439..88142912,3	MCF-7	breast:
2	chr4:88127634..88129911-chr4:88140164..88142825,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145332	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10000784	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1021104	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11946293	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13435265	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1481947	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1552144	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17012516	0.83[AMR][1000 genomes]
rs17012517	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28505236	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28571134	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28670747	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28734493	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28882732	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3193672	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3209390	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4577539	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55747890	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs66527077	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72667790	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7437661	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997750	chr4:87933945-88264127	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	25 gene(s)	inside rSNPs	diseases
2	nsv1007020	chr4:88046263-88235018	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537169	chr4:88046263-88235018	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh 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	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:88081800-88140200	Weak transcription	Aorta	Aorta
2	chr4:88082000-88129200	Weak transcription	Esophagus	oesophagus
3	chr4:88089600-88131000	Weak transcription	Ovary	ovary
4	chr4:88091800-88128600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr4:88091800-88133600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr4:88092200-88134800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr4:88097600-88140400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr4:88109600-88133600	Weak transcription	Fetal Lung	lung
9	chr4:88114600-88129000	Weak transcription	K562	blood
10	chr4:88115800-88131000	Weak transcription	Gastric	stomach
11	chr4:88116400-88138000	Weak transcription	HepG2	liver
12	chr4:88119400-88132600	Weak transcription	Psoas Muscle	Psoas
13	chr4:88121200-88128400	Weak transcription	Right Ventricle	heart
14	chr4:88121200-88130400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr4:88121200-88134600	Weak transcription	Pancreas	Pancrea
16	chr4:88122400-88140000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr4:88124800-88129400	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr4:88125400-88134600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr4:88125400-88134800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr4:88125400-88140200	Weak transcription	Fetal Intestine Large	intestine
21	chr4:88125600-88130200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:88125600-88134600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr4:88125800-88134600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr4:88126000-88132800	Weak transcription	Fetal Heart	heart
25	chr4:88126600-88128600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr4:88126800-88130400	Weak transcription	Adipose Nuclei	Adipose
27	chr4:88126800-88130400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr4:88126800-88140000	Weak transcription	Fetal Stomach	stomach
29	chr4:88127200-88140200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr4:88127400-88129200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr4:88127400-88130000	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr4:88127600-88128400	Strong transcription	Liver	Liver
33	chr4:88127600-88128800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr4:88127600-88129000	Strong transcription	Skeletal Muscle Female	skeletal muscle
35	chr4:88127800-88128400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr4:88127800-88132200	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr4:88128000-88128600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr4:88128000-88128600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr4:88128000-88128800	Strong transcription	Primary hematopoietic stem cells	blood
40	chr4:88128000-88128800	Strong transcription	Brain Germinal Matrix	brain
41	chr4:88128000-88128800	Strong transcription	Duodenum Mucosa	Duodenum
42	chr4:88128000-88129200	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr4:88128000-88129600	Strong transcription	Primary T cells from cord blood	blood
44	chr4:88128000-88130200	Weak transcription	Primary B cells from cord blood	blood
45	chr4:88128200-88128400	Enhancers	Thymus	Thymus
46	chr4:88128200-88128600	Weak transcription	Lung	lung
47	chr4:88128200-88129000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr4:88128200-88129000	Strong transcription	Spleen	Spleen
49	chr4:88128200-88129400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr4:88128200-88129800	Strong transcription	Fetal Intestine Small	intestine

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