Variant report

Variant	rs1567788
Chromosome Location	chr3:133112197-133112198
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:133101161..133103236-chr3:133110708..133113387,2	MCF-7	breast:
2	chr3:133110660..133112809-chr3:133115300..133117323,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1109858	1.00[ASW][hapmap];0.80[CEU][hapmap];0.80[CHB][hapmap];0.81[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1197282	1.00[ASW][hapmap];0.94[MEX][hapmap]
rs1197305	0.82[CHB][hapmap]
rs1197308	0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1197311	1.00[YRI][hapmap]
rs1201674	0.80[AMR][1000 genomes]
rs16840179	1.00[ASW][hapmap];0.94[MEX][hapmap]
rs1708357	0.80[AMR][1000 genomes]
rs1708368	0.89[MEX][hapmap]
rs1708386	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1795101	0.80[CEU][hapmap];0.84[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2060639	0.89[MEX][hapmap]
rs4854576	0.84[MEX][hapmap]
rs4854582	0.80[AMR][1000 genomes]
rs4854708	1.00[ASW][hapmap];0.94[MEX][hapmap]
rs553211	1.00[YRI][hapmap]
rs938238	0.88[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460857	chr3:133101390-133122216	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv591801	chr3:133101390-133122216	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133099000-133117000	Weak transcription	Placenta	Placenta
2	chr3:133099600-133122600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:133102400-133112400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:133103400-133112400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:133103400-133115200	Weak transcription	Lung	lung
6	chr3:133103400-133123200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:133103400-133123600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:133103800-133115800	Weak transcription	Fetal Muscle Leg	muscle
9	chr3:133103800-133118600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:133103800-133123800	Weak transcription	Brain Anterior Caudate	brain
11	chr3:133104000-133122200	Weak transcription	Brain Substantia Nigra	brain
12	chr3:133104400-133131400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr3:133107200-133123800	Weak transcription	Fetal Thymus	thymus
14	chr3:133108000-133115200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:133108200-133112800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr3:133108800-133112800	Strong transcription	Cortex derived primary cultured neurospheres	brain
17	chr3:133109000-133112800	Strong transcription	Brain Germinal Matrix	brain
18	chr3:133109800-133112800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr3:133110000-133120400	Weak transcription	Brain Angular Gyrus	brain
20	chr3:133110200-133120400	Weak transcription	Fetal Brain Male	brain
21	chr3:133110600-133112600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:133110800-133123600	Weak transcription	HSMM	muscle
23	chr3:133111000-133112400	Weak transcription	Fetal Stomach	stomach
24	chr3:133111200-133112200	Strong transcription	Fetal Lung	lung
25	chr3:133111400-133113200	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr3:133111600-133113600	Strong transcription	HSMMtube	muscle
27	chr3:133111800-133112600	Enhancers	Brain Hippocampus Middle	brain
28	chr3:133111800-133112800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
29	chr3:133111800-133113200	Enhancers	Right Atrium	heart
30	chr3:133111800-133114200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:133112000-133112400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr3:133112000-133112600	Enhancers	Brain Cingulate Gyrus	brain
33	chr3:133112000-133112600	Enhancers	Brain Inferior Temporal Lobe	brain
34	chr3:133112000-133112600	Genic enhancers	Fetal Brain Female	brain
35	chr3:133112000-133112800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr3:133112000-133112800	Weak transcription	Left Ventricle	heart
37	chr3:133112000-133113200	Enhancers	Right Ventricle	heart
38	chr3:133112000-133114000	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links