Variant report

Variant	rs66488325
Chromosome Location	chr15:40874120-40874121
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	chr15:40866258..40868658-chr15:40873477..40876647,3	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1335920	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17596144	0.91[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17596947	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17649913	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1874124	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2642417	0.88[ASN][1000 genomes]
rs2642420	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2642422	0.88[ASN][1000 genomes]
rs34404525	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34621709	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7549963	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv832984	chr15:40794391-40998535	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	esv2758378	chr15:40832545-40995111	Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv2760026	chr15:40832545-40995111	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40862800-40875200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr15:40863000-40875000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr15:40863000-40875000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr15:40865800-40875000	Weak transcription	Fetal Lung	lung
5	chr15:40866000-40874800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr15:40866400-40874800	Weak transcription	Colonic Mucosa	Colon
7	chr15:40866400-40876600	Weak transcription	HSMMtube	muscle
8	chr15:40866400-40878200	Weak transcription	Brain Angular Gyrus	brain
9	chr15:40866600-40874600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr15:40866600-40874800	Weak transcription	Pancreas	Pancrea
11	chr15:40866600-40874800	Weak transcription	A549	lung
12	chr15:40866600-40875000	Weak transcription	Lung	lung
13	chr15:40866600-40875000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:40866600-40875200	Weak transcription	Spleen	Spleen
15	chr15:40866600-40875200	Weak transcription	HSMM	muscle
16	chr15:40866600-40881800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr15:40866600-40881800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr15:40866600-40881800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:40866800-40874800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:40866800-40875200	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr15:40866800-40875200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr15:40866800-40875200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr15:40867000-40874800	Weak transcription	Osteobl	bone
24	chr15:40867000-40875200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr15:40867200-40874800	Weak transcription	Brain Anterior Caudate	brain
26	chr15:40867200-40874800	Weak transcription	Fetal Muscle Leg	muscle
27	chr15:40867200-40875000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr15:40867200-40875000	Weak transcription	Primary B cells from cord blood	blood
29	chr15:40867200-40875000	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr15:40867200-40875000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr15:40867200-40875000	Weak transcription	Brain Substantia Nigra	brain
32	chr15:40867200-40875000	Weak transcription	Colon Smooth Muscle	Colon
33	chr15:40867200-40875000	Weak transcription	Stomach Smooth Muscle	stomach
34	chr15:40867200-40875200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr15:40867200-40875200	Weak transcription	Fetal Thymus	thymus
36	chr15:40867200-40875200	Weak transcription	Left Ventricle	heart
37	chr15:40867200-40875200	Weak transcription	HMEC	breast
38	chr15:40867200-40876400	Weak transcription	Brain Cingulate Gyrus	brain
39	chr15:40867400-40874200	Weak transcription	Primary T cells from cord blood	blood
40	chr15:40867400-40874800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr15:40867400-40874800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:40867400-40874800	Weak transcription	Placenta	Placenta
43	chr15:40867400-40874800	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr15:40867400-40875000	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr15:40867400-40875000	Weak transcription	Dnd41	blood
46	chr15:40867400-40875000	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr15:40867400-40875200	Weak transcription	Fetal Intestine Large	intestine
48	chr15:40867400-40875200	Weak transcription	NHDF-Ad	bronchial
49	chr15:40867400-40875400	Weak transcription	NHEK	skin
50	chr15:40867400-40876400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links