Variant report

Variant	rs73407328
Chromosome Location	chr15:52051027-52051028
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52028181..52032954-chr15:52050508..52053619,6	MCF-7	breast:
2	chr15:52047517..52051526-chr15:52055116..52057120,3	K562	blood:
3	chr15:52049744..52051270-chr15:52058518..52061301,2	K562	blood:
4	chr15:52049654..52051374-chr15:52054509..52056705,2	MCF-7	breast:
5	chr15:52042908..52046919-chr15:52047131..52052382,6	MCF-7	breast:
6	chr15:52048901..52051193-chr15:52052461..52055031,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000140280	Chromatin interaction
ENSG00000259377	Chromatin interaction
ENSG00000128872	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10519324	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16953079	1.00[EUR][1000 genomes]
rs16964509	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964513	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964517	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964530	1.00[EUR][1000 genomes]
rs17648915	0.95[AFR][1000 genomes]
rs17648927	0.95[AFR][1000 genomes]
rs17649601	1.00[EUR][1000 genomes]
rs17705437	0.95[AFR][1000 genomes]
rs2554357	1.00[EUR][1000 genomes]
rs57399438	0.95[AFR][1000 genomes]
rs58356723	1.00[EUR][1000 genomes]
rs58434025	0.95[AFR][1000 genomes]
rs58559761	0.95[AFR][1000 genomes]
rs58958163	1.00[EUR][1000 genomes]
rs59426894	0.95[AFR][1000 genomes]
rs59522140	1.00[EUR][1000 genomes]
rs60590663	0.95[AFR][1000 genomes]
rs73405314	0.95[AFR][1000 genomes]
rs73405317	0.95[AFR][1000 genomes]
rs73405321	0.95[AFR][1000 genomes]
rs73405322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73405324	0.95[AFR][1000 genomes]
rs73405338	0.95[AFR][1000 genomes]
rs73405339	0.95[AFR][1000 genomes]
rs73405346	0.95[AFR][1000 genomes]
rs73405351	0.95[AFR][1000 genomes]
rs73405368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73405370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73405377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73405389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73405400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407332	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407339	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407384	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407393	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73409029	1.00[EUR][1000 genomes]
rs73409034	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS 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

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52044600-52060000	Weak transcription	Esophagus	oesophagus
2	chr15:52044600-52060200	Weak transcription	Aorta	Aorta
3	chr15:52044800-52060000	Weak transcription	Spleen	Spleen
4	chr15:52045000-52060200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr15:52045200-52053400	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr15:52045800-52053200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:52046800-52060000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr15:52047000-52052400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:52047200-52053600	Enhancers	Brain Cingulate Gyrus	brain
10	chr15:52047400-52053600	Enhancers	Brain Hippocampus Middle	brain
11	chr15:52048000-52058000	Weak transcription	Primary T cells from cord blood	blood
12	chr15:52048200-52060000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr15:52048200-52060200	Weak transcription	Thymus	Thymus
14	chr15:52048600-52052200	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr15:52049000-52053000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr15:52049200-52053000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr15:52049200-52053400	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr15:52049200-52060000	Weak transcription	Dnd41	blood
19	chr15:52049400-52052600	Enhancers	Brain Angular Gyrus	brain
20	chr15:52049400-52059800	Weak transcription	Primary B cells from cord blood	blood
21	chr15:52049800-52052400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr15:52049800-52052400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:52049800-52052400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr15:52049800-52053400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:52049800-52059800	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr15:52050400-52051400	Enhancers	Fetal Brain Female	brain
27	chr15:52050400-52052200	Enhancers	Fetal Brain Male	brain
28	chr15:52050400-52052400	Enhancers	NHDF-Ad	bronchial
29	chr15:52050400-52052600	Enhancers	HSMM	muscle
30	chr15:52050600-52051200	Enhancers	Brain Germinal Matrix	brain
31	chr15:52050600-52051400	Enhancers	Adipose Nuclei	Adipose
32	chr15:52050600-52051400	Enhancers	Rectal Mucosa Donor 29	rectum
33	chr15:52050600-52051400	Bivalent Enhancer	Stomach Mucosa	stomach
34	chr15:52050600-52051400	Enhancers	Stomach Smooth Muscle	stomach
35	chr15:52050600-52052200	Enhancers	Colon Smooth Muscle	Colon
36	chr15:52050600-52052200	Enhancers	Fetal Intestine Small	intestine
37	chr15:52050600-52052200	Enhancers	Fetal Stomach	stomach
38	chr15:52050600-52052200	Enhancers	NH-A	brain
39	chr15:52050600-52052400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr15:52050600-52052400	Enhancers	Fetal Lung	lung
41	chr15:52050600-52052400	Enhancers	Fetal Muscle Leg	muscle
42	chr15:52050600-52052400	Enhancers	Rectal Smooth Muscle	rectum
43	chr15:52050600-52052400	Enhancers	Osteobl	bone
44	chr15:52050600-52052600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr15:52050600-52052600	Enhancers	NHLF	lung
46	chr15:52050800-52051200	Flanking Active TSS	Brain Anterior Caudate	brain
47	chr15:52050800-52051200	Enhancers	Gastric	stomach
48	chr15:52050800-52051200	Enhancers	Lung	lung
49	chr15:52050800-52051200	Enhancers	Ovary	ovary
50	chr15:52050800-52051200	Enhancers	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links