Variant report

Variant	rs73406074
Chromosome Location	chr15:49930944-49930945
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49922622..49925463-chr15:49927665..49931439,3	MCF-7	breast:
2	chr15:49918122..49920782-chr15:49929071..49931925,2	MCF-7	breast:
3	chr15:49923405..49926341-chr15:49928065..49931035,4	MCF-7	breast:
4	chr15:49930909..49931606-chr15:50167365..50168135,3	MCF-7	breast:
5	chr15:49930312..49931293-chr15:50295864..50296533,3	MCF-7	breast:
6	chr15:49930555..49931785-chr15:50124192..50125413,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104047	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs60130190	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60707261	0.86[AFR][1000 genomes]
rs61014555	0.86[AFR][1000 genomes]
rs73391027	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73391029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73400271	0.83[AFR][1000 genomes]
rs73400275	0.83[AFR][1000 genomes]
rs73404129	0.86[AFR][1000 genomes]
rs73404137	0.86[AFR][1000 genomes]
rs73404155	0.83[AFR][1000 genomes]
rs73404164	0.85[AFR][1000 genomes]
rs73404198	0.86[AFR][1000 genomes]
rs73406010	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406011	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406015	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406020	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406029	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406033	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406042	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406043	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406097	1.00[AFR][1000 genomes];1.00[AMR][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	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49913600-49937400	Weak transcription	Spleen	Spleen
2	chr15:49914400-49936400	Weak transcription	Small Intestine	intestine
3	chr15:49914400-49938000	Weak transcription	Brain Substantia Nigra	brain
4	chr15:49914600-49932600	Weak transcription	Fetal Brain Male	brain
5	chr15:49914600-49934400	Weak transcription	Stomach Mucosa	stomach
6	chr15:49914800-49937800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:49915000-49936600	Weak transcription	Pancreas	Pancrea
8	chr15:49915400-49937800	Weak transcription	Brain Anterior Caudate	brain
9	chr15:49916000-49936400	Weak transcription	Psoas Muscle	Psoas
10	chr15:49918000-49938600	Weak transcription	Right Ventricle	heart
11	chr15:49918000-49938800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:49918200-49931400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr15:49918200-49932800	Weak transcription	Thymus	Thymus
14	chr15:49918200-49933200	Weak transcription	Esophagus	oesophagus
15	chr15:49918200-49934000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr15:49918200-49934000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr15:49918200-49935800	Weak transcription	Brain Germinal Matrix	brain
18	chr15:49918200-49936200	Weak transcription	Aorta	Aorta
19	chr15:49918200-49936600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr15:49918200-49936600	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr15:49918200-49937200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr15:49918200-49938000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr15:49918200-49938400	Weak transcription	HepG2	liver
24	chr15:49918200-49942200	Weak transcription	GM12878-XiMat	blood
25	chr15:49918400-49931400	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr15:49918400-49938000	Weak transcription	Colonic Mucosa	Colon
27	chr15:49918600-49932200	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr15:49918600-49938800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr15:49919600-49931200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr15:49919800-49940200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr15:49920000-49938200	Weak transcription	Brain Angular Gyrus	brain
32	chr15:49920000-49940400	Weak transcription	A549	lung
33	chr15:49920200-49936600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr15:49920800-49936400	Weak transcription	K562	blood
35	chr15:49920800-49937800	Weak transcription	NHEK	skin
36	chr15:49920800-49938000	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr15:49920800-49940000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr15:49921000-49935600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr15:49921000-49937600	Weak transcription	HMEC	breast
40	chr15:49921400-49934400	Weak transcription	Primary hematopoietic stem cells	blood
41	chr15:49921600-49931600	Strong transcription	HSMM	muscle
42	chr15:49922000-49934400	Strong transcription	Hela-S3	cervix
43	chr15:49924000-49936400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr15:49924400-49935400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr15:49925200-49936400	Weak transcription	NHLF	lung
46	chr15:49925400-49935200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr15:49926000-49938000	Weak transcription	NH-A	brain
48	chr15:49927000-49940000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr15:49927200-49931800	Strong transcription	Fetal Intestine Large	intestine
50	chr15:49927600-49938800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links