Variant report

Variant	rs9858987
Chromosome Location	chr3:150441251-150441252
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150248363..150251305-chr3:150440477..150443457,2	K562	blood:
2	chr3:150440644..150442548-chr3:150452902..150455892,2	MCF-7	breast:
3	chr3:150440106..150441295-chr3:150454715..150455751,43	MCF-7	breast:
4	chr3:150433681..150449199-chr3:150473254..150487048,35	MCF-7	breast:
5	chr3:150419945..150423964-chr3:150439302..150443369,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181788	Chromatin interaction
ENSG00000163645	Chromatin interaction
ENSG00000244265	Chromatin interaction
ENSG00000240137	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12494272	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12630292	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12634699	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12638096	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1897489	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1897491	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28460384	0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28790675	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4558804	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55838848	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6766333	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6784407	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7641475	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7648424	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7650706	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9682958	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9814796	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9848451	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9869495	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9876621	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150422200-150443200	Weak transcription	Lung	lung
2	chr3:150422400-150443000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:150422600-150441800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:150423200-150451600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:150429200-150444600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:150429200-150457600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:150430000-150455000	Weak transcription	Primary T cells from cord blood	blood
8	chr3:150430400-150441600	Weak transcription	Thymus	Thymus
9	chr3:150430800-150454000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:150439200-150442200	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr3:150439400-150441400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:150439400-150446800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:150439600-150443000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:150439600-150444400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:150439600-150444800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:150439800-150441800	Weak transcription	Brain Germinal Matrix	brain
17	chr3:150439800-150441800	Weak transcription	Ovary	ovary
18	chr3:150439800-150441800	Weak transcription	HepG2	liver
19	chr3:150439800-150442000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr3:150439800-150442600	Weak transcription	Placenta	Placenta
21	chr3:150439800-150443000	Weak transcription	Colonic Mucosa	Colon
22	chr3:150439800-150443000	Weak transcription	Duodenum Mucosa	Duodenum
23	chr3:150439800-150443000	Weak transcription	Fetal Intestine Large	intestine
24	chr3:150439800-150443000	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr3:150439800-150443200	Weak transcription	Fetal Intestine Small	intestine
26	chr3:150439800-150444600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:150439800-150444800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr3:150439800-150444800	Weak transcription	Adipose Nuclei	Adipose
29	chr3:150439800-150444800	Weak transcription	Brain Cingulate Gyrus	brain
30	chr3:150439800-150444800	Weak transcription	Brain Hippocampus Middle	brain
31	chr3:150439800-150445600	Weak transcription	Gastric	stomach
32	chr3:150439800-150457600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr3:150439800-150459000	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr3:150440400-150441400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:150440400-150443000	Enhancers	NHEK	skin
36	chr3:150441000-150443000	Weak transcription	Hela-S3	cervix
37	chr3:150441000-150443000	Weak transcription	K562	blood
38	chr3:150441000-150443200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr3:150441000-150445000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr3:150441200-150442200	Enhancers	Fetal Thymus	thymus

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