Variant report

Variant	rs34366978
Chromosome Location	chr5:106758558-106758559
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:106751855..106753579-chr5:106758119..106760914,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10085055	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11242636	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11956440	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13178242	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13182976	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1975009	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28683545	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34583348	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35021422	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3756544	0.82[EUR][1000 genomes]
rs3776792	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3797514	0.82[EUR][1000 genomes]
rs3797517	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3797521	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3797527	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3822565	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3873122	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3873123	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3901010	0.81[EUR][1000 genomes]
rs58696640	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59863014	0.82[EUR][1000 genomes]
rs66505151	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6868410	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72785818	0.82[EUR][1000 genomes]
rs72785829	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7703776	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][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	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106738800-106761600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:106739600-106762600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr5:106751400-106759400	Enhancers	A549	lung
4	chr5:106751600-106764400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr5:106751800-106765800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr5:106751800-106767800	Weak transcription	Stomach Mucosa	stomach
7	chr5:106752000-106761600	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:106752600-106761600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr5:106753400-106764400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:106754000-106767600	Weak transcription	Fetal Stomach	stomach
11	chr5:106754200-106759200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr5:106754200-106763800	Weak transcription	GM12878-XiMat	blood
13	chr5:106754400-106761200	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr5:106754800-106762200	Weak transcription	Fetal Lung	lung
15	chr5:106756400-106768200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr5:106756600-106772000	Weak transcription	Esophagus	oesophagus
17	chr5:106757400-106758600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr5:106757600-106758800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr5:106757600-106760400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr5:106758000-106758600	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr5:106758000-106758600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr5:106758000-106758600	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr5:106758000-106758600	Enhancers	Fetal Heart	heart
24	chr5:106758200-106758600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr5:106758200-106758600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr5:106758200-106758600	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr5:106758200-106758600	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr5:106758200-106758600	Enhancers	Fetal Kidney	kidney
29	chr5:106758200-106758600	Enhancers	Left Ventricle	heart
30	chr5:106758200-106758600	Enhancers	HSMM	muscle
31	chr5:106758200-106758600	Enhancers	NHEK	skin
32	chr5:106758200-106761000	Enhancers	HUVEC	blood vessel
33	chr5:106758200-106761600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr5:106758200-106761600	Enhancers	Hela-S3	cervix
35	chr5:106758200-106762400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr5:106758400-106758600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr5:106758400-106758600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:106758400-106758600	Enhancers	Aorta	Aorta
39	chr5:106758400-106758600	Enhancers	Right Ventricle	heart
40	chr5:106758400-106758600	Enhancers	HMEC	breast
41	chr5:106758400-106758800	Enhancers	Muscle Satellite Cultured Cells	--
42	chr5:106758400-106758800	Enhancers	Placenta Amnion	Placenta Amnion
43	chr5:106758400-106759200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr5:106758400-106759400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr5:106758400-106760200	Weak transcription	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links