Variant report

Variant	rs4705781
Chromosome Location	chr5:112457709-112457710
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	chr5:112455253..112458185-chr5:112461323..112464102,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11952087	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11955830	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs35555142	0.83[EUR][1000 genomes]
rs4235792	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4259163	0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4454046	0.89[ASW][hapmap];0.87[LWK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4458560	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4527591	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4582268	1.00[EUR][1000 genomes]
rs4705541	0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60681208	0.83[EUR][1000 genomes]
rs62373350	0.83[EUR][1000 genomes]
rs62373352	0.83[EUR][1000 genomes]
rs62374676	0.83[EUR][1000 genomes]
rs62374682	0.83[EUR][1000 genomes]
rs62374707	0.83[EUR][1000 genomes]
rs62374708	1.00[EUR][1000 genomes]
rs62374709	1.00[EUR][1000 genomes]
rs62374711	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6594684	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6594688	0.91[AFR][1000 genomes]
rs6594689	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6872711	1.00[ASW][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73237129	1.00[EUR][1000 genomes]
rs7703001	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv1018344	chr5:112390951-112458853	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112431200-112461600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr5:112434000-112459200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:112450000-112459200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr5:112451000-112460600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:112451000-112478800	Weak transcription	Aorta	Aorta
6	chr5:112453800-112461800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:112454600-112459000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr5:112454600-112459400	Enhancers	NHDF-Ad	bronchial
9	chr5:112454600-112460600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr5:112454800-112460400	Weak transcription	Brain Hippocampus Middle	brain
11	chr5:112454800-112460600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr5:112455000-112460000	Weak transcription	Fetal Brain Male	brain
13	chr5:112455000-112462200	Enhancers	Fetal Heart	heart
14	chr5:112455200-112459200	Weak transcription	Pancreas	Pancrea
15	chr5:112455200-112459400	Weak transcription	Brain Germinal Matrix	brain
16	chr5:112455200-112459400	Weak transcription	Fetal Brain Female	brain
17	chr5:112455400-112458000	Weak transcription	NHLF	lung
18	chr5:112455400-112458400	Weak transcription	Fetal Muscle Trunk	muscle
19	chr5:112455400-112459200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr5:112455400-112459200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr5:112455400-112459600	Weak transcription	Colon Smooth Muscle	Colon
22	chr5:112455400-112460200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr5:112455400-112461400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr5:112455400-112461400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr5:112455600-112458200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr5:112455600-112460000	Weak transcription	Fetal Lung	lung
27	chr5:112456000-112458200	Weak transcription	Fetal Muscle Leg	muscle
28	chr5:112456200-112458600	Enhancers	HMEC	breast
29	chr5:112456200-112459200	Weak transcription	Right Ventricle	heart
30	chr5:112456200-112459400	Weak transcription	Fetal Kidney	kidney
31	chr5:112456200-112459800	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr5:112456600-112459000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr5:112456600-112460000	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr5:112456600-112467200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr5:112456800-112457800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr5:112456800-112458800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr5:112457000-112458800	Enhancers	NHEK	skin
38	chr5:112457200-112458000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr5:112457200-112458400	Weak transcription	Right Atrium	heart
40	chr5:112457200-112458600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr5:112457200-112458800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr5:112457200-112458800	Weak transcription	Left Ventricle	heart
43	chr5:112457200-112460400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr5:112457200-112460400	Weak transcription	Ovary	ovary
45	chr5:112457400-112458600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr5:112457400-112458600	Enhancers	Muscle Satellite Cultured Cells	--
47	chr5:112457400-112458800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr5:112457400-112459000	Enhancers	Osteobl	bone
49	chr5:112457400-112462000	Enhancers	Adipose Nuclei	Adipose
50	chr5:112457600-112459600	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links