Variant report

Variant	rs12958481
Chromosome Location	chr18:9105103-9105104
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:9100237..9107287-chr18:9132588..9139279,23	MCF-7	breast:
2	chr18:9100057..9106592-chr18:9133189..9143801,32	K562	blood:
3	chr18:9099316..9108402-chr18:9132066..9139576,22	K562	blood:
4	chr18:9104527..9106876-chr18:9108422..9111915,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266053	Chromatin interaction
ENSG00000101745	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12956041	0.90[AMR][1000 genomes]
rs4130177	0.90[AMR][1000 genomes]
rs62085884	0.90[AMR][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	nsv1064883	chr18:8709670-9133224	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS 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 target site	25 gene(s)	inside rSNPs	diseases
2	nsv916373	chr18:9026803-9592201	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv431971	chr18:9081185-9326852	Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1056258	chr18:9094498-9181498	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:9101600-9105400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr18:9101600-9106000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr18:9101600-9106000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr18:9101600-9106400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr18:9101800-9105200	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr18:9101800-9105400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr18:9101800-9105400	Active TSS	Duodenum Smooth Muscle	Duodenum
8	chr18:9101800-9106000	Active TSS	Aorta	Aorta
9	chr18:9101800-9106000	Active TSS	Right Atrium	heart
10	chr18:9101800-9106600	Active TSS	NHLF	lung
11	chr18:9102000-9106000	Active TSS	Right Ventricle	heart
12	chr18:9102000-9106200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr18:9102000-9106200	Active TSS	Ovary	ovary
14	chr18:9102200-9105200	Active TSS	iPS-15b Cell Line	embryonic stem cell
15	chr18:9102200-9105200	Active TSS	HMEC	breast
16	chr18:9102800-9106200	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
17	chr18:9103000-9105400	Flanking Active TSS	Primary hematopoietic stem cells	blood
18	chr18:9103000-9106200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr18:9103000-9106400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr18:9103000-9108000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
21	chr18:9103000-9108000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr18:9103400-9105400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr18:9103400-9105800	Flanking Active TSS	Primary T cells from cord blood	blood
24	chr18:9103400-9105800	Flanking Active TSS	Osteobl	bone
25	chr18:9103400-9106400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr18:9103400-9106800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
27	chr18:9103400-9111400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr18:9103400-9111600	Weak transcription	Pancreas	Pancrea
29	chr18:9103400-9113400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr18:9103400-9113400	Weak transcription	Spleen	Spleen
31	chr18:9103600-9105200	Flanking Active TSS	Adipose Nuclei	Adipose
32	chr18:9103600-9105200	Flanking Active TSS	Fetal Brain Male	brain
33	chr18:9103600-9105200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
34	chr18:9103600-9106000	Flanking Active TSS	Fetal Heart	heart
35	chr18:9103600-9106200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
36	chr18:9103600-9106200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr18:9103600-9106600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr18:9103600-9108200	Transcr. at gene 5' and 3'	K562	blood
39	chr18:9103600-9110600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr18:9103800-9105800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
41	chr18:9103800-9106000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
42	chr18:9103800-9106000	Flanking Active TSS	NH-A	brain
43	chr18:9103800-9106200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
44	chr18:9103800-9106200	Flanking Active TSS	Liver	Liver
45	chr18:9103800-9106200	Flanking Active TSS	Rectal Smooth Muscle	rectum
46	chr18:9103800-9106400	Enhancers	Placenta Amnion	Placenta Amnion
47	chr18:9103800-9106600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
48	chr18:9103800-9107800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
49	chr18:9103800-9108000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
50	chr18:9103800-9117000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links