Variant report

Variant	rs62425895
Chromosome Location	chr6:149459022-149459023
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149452280..149455428-chr6:149458542..149462690,3	MCF-7	breast:
2	chr6:149449471..149451391-chr6:149458352..149459927,2	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs4308587	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4357160	0.94[EUR][1000 genomes]
rs4535574	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4895778	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55635503	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55843534	0.94[EUR][1000 genomes]
rs56052955	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56071715	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56098879	0.93[EUR][1000 genomes]
rs56227122	0.93[EUR][1000 genomes]
rs56367965	0.93[EUR][1000 genomes]
rs57116615	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58260766	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58500730	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60008694	0.86[EUR][1000 genomes]
rs60107332	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60424096	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61338555	0.93[EUR][1000 genomes]
rs61555942	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62425887	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62425899	0.94[EUR][1000 genomes]
rs62425913	0.94[EUR][1000 genomes]
rs62425916	0.94[EUR][1000 genomes]
rs62425928	0.93[EUR][1000 genomes]
rs62428289	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[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	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1034080	chr6:149456387-149480990	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149450000-149461200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:149450200-149461200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:149454000-149459200	Weak transcription	Esophagus	oesophagus
4	chr6:149454200-149459200	Weak transcription	Dnd41	blood
5	chr6:149454200-149459400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:149456600-149459400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:149456800-149461200	Weak transcription	Fetal Lung	lung
8	chr6:149457800-149459200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:149458000-149459200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:149458000-149461200	Enhancers	Primary T cells fromperipheralblood	blood
11	chr6:149458000-149461400	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr6:149458600-149459200	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr6:149458600-149461000	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr6:149458800-149459200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr6:149458800-149459400	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr6:149458800-149459600	Enhancers	Adipose Nuclei	Adipose
17	chr6:149458800-149460800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:149459000-149459400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr6:149459000-149459400	Flanking Active TSS	Liver	Liver
20	chr6:149459000-149459400	Enhancers	Stomach Smooth Muscle	stomach
21	chr6:149459000-149459600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:149459000-149459600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:149459000-149461000	Enhancers	K562	blood
24	chr6:149459000-149461400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:149459000-149461400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr6:149459000-149462000	Enhancers	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links