Variant report

Variant	rs1525859
Chromosome Location	chr3:143275213-143275214
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	chr3:143273534..143275942-chr3:143280274..143281956,2	K562	blood:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1025813	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13085041	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13099818	0.93[ASN][1000 genomes]
rs1440730	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1986300	0.85[AFR][1000 genomes]
rs6781705	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6800266	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7630200	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143248400-143276800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr3:143255600-143276800	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:143256000-143305600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:143256800-143277000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:143257200-143277800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr3:143262000-143279200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:143263200-143277000	Weak transcription	Gastric	stomach
8	chr3:143265000-143277600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:143267600-143277000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr3:143269800-143277000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:143270400-143277000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr3:143270600-143276200	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:143270600-143304800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:143270800-143276800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr3:143270800-143276800	Weak transcription	Esophagus	oesophagus
16	chr3:143270800-143276800	Weak transcription	Ovary	ovary
17	chr3:143270800-143277000	Weak transcription	Brain Hippocampus Middle	brain
18	chr3:143271200-143276800	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr3:143271400-143277000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:143271800-143276800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr3:143272000-143276800	Weak transcription	Adipose Nuclei	Adipose
22	chr3:143272200-143276400	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr3:143272200-143276800	Weak transcription	Primary T cells from cord blood	blood
24	chr3:143273800-143279800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr3:143275000-143276800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links