Variant report

Variant	rs4074960
Chromosome Location	chr6:11425058-11425059
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11355983..11357680-chr6:11424097..11426477,2	MCF-7	breast:
2	chr6:11423621..11427169-chr6:11433589..11436531,3	MCF-7	breast:
3	chr6:11420850..11423411-chr6:11425046..11427068,2	K562	blood:
4	chr6:11424121..11426419-chr6:11426537..11429403,3	MCF-7	breast:
5	chr6:11418259..11420546-chr6:11423416..11426272,2	MCF-7	breast:
6	chr6:11424461..11426917-chr6:11430880..11433034,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs35041358	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4075603	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4076120	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4285312	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4518488	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457459	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7759515	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296006	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296007	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296008	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368702	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368703	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380273	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380274	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380275	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394080	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11412600-11425600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:11412600-11425600	Weak transcription	NHLF	lung
3	chr6:11415000-11425800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:11417800-11426400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:11420200-11427400	Weak transcription	Aorta	Aorta
6	chr6:11423200-11431800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:11423400-11426200	Enhancers	HMEC	breast
8	chr6:11423400-11427800	Enhancers	A549	lung
9	chr6:11423400-11430200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:11423400-11430400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:11423400-11430600	Enhancers	NHDF-Ad	bronchial
12	chr6:11423400-11434200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:11423600-11425200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:11423600-11425800	Enhancers	Hela-S3	cervix
15	chr6:11423600-11426200	Enhancers	NH-A	brain
16	chr6:11423600-11427600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:11423600-11430400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:11423600-11432200	Enhancers	Muscle Satellite Cultured Cells	--
19	chr6:11423600-11435200	Enhancers	HepG2	liver
20	chr6:11423800-11425200	Enhancers	NHEK	skin
21	chr6:11423800-11427000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr6:11423800-11427400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:11423800-11435600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:11424000-11425200	Enhancers	Adipose Nuclei	Adipose
25	chr6:11424000-11427000	Enhancers	Fetal Kidney	kidney
26	chr6:11424000-11427600	Weak transcription	Esophagus	oesophagus
27	chr6:11424000-11427600	Weak transcription	Left Ventricle	heart
28	chr6:11424000-11428600	Enhancers	Lung	lung
29	chr6:11424000-11429600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr6:11424000-11429600	Enhancers	Stomach Mucosa	stomach
31	chr6:11424000-11430400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:11424200-11425600	Weak transcription	HSMM	muscle
33	chr6:11424200-11425800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:11424400-11425200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:11424600-11430600	Enhancers	Placenta	Placenta
36	chr6:11424600-11430800	Enhancers	Osteobl	bone
37	chr6:11424800-11425200	Flanking Active TSS	HUVEC	blood vessel
38	chr6:11424800-11425400	Enhancers	Right Atrium	heart
39	chr6:11424800-11426800	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr6:11424800-11428000	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr6:11424800-11430800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:11425000-11425600	Weak transcription	Fetal Lung	lung
43	chr6:11425000-11425800	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr6:11425000-11425800	Weak transcription	HSMMtube	muscle
45	chr6:11425000-11426000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr6:11425000-11426800	Weak transcription	Fetal Stomach	stomach
47	chr6:11425000-11427400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr6:11425000-11427400	Weak transcription	Gastric	stomach
49	chr6:11425000-11427800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr6:11425000-11428200	Weak transcription	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links