Variant report

Variant	rs73393289
Chromosome Location	chr15:39959248-39959249
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:39159362..39162294-chr15:39956863..39959269,2	MCF-7	breast:
2	chr15:39920700..39923129-chr15:39958970..39962199,4	MCF-7	breast:
3	chr15:39870612..39877795-chr15:39952369..39962860,18	MCF-7	breast:
4	chr15:39947922..39949877-chr15:39956880..39959494,2	MCF-7	breast:
5	chr15:39913171..39923947-chr15:39954798..39966806,32	MCF-7	breast:
6	chr15:39890163..39892186-chr15:39958834..39961393,2	MCF-7	breast:
7	chr15:39892943..39897047-chr15:39958260..39961815,3	MCF-7	breast:
8	chr15:39930109..39933577-chr15:39957965..39961029,3	MCF-7	breast:
9	chr15:39878927..39880641-chr15:39959246..39961103,2	MCF-7	breast:
10	chr15:39880858..39882664-chr15:39957984..39960909,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000150667	Chromatin interaction
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11282	1.00[AMR][1000 genomes]
rs59272325	1.00[AMR][1000 genomes]
rs60432814	1.00[AMR][1000 genomes]
rs7174291	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7174422	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393276	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393277	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393281	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393285	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393293	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393295	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393297	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8029851	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8030230	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39955600-39959800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:39955800-39960200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:39955800-39960200	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr15:39956000-39960200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:39956600-39959800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr15:39956600-39960000	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr15:39956800-39959800	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr15:39956800-39961400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:39957200-39961000	Enhancers	HSMMtube	muscle
10	chr15:39957600-39961200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:39957800-39959400	Enhancers	HUVEC	blood vessel
12	chr15:39958000-39959600	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr15:39958000-39960200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr15:39958200-39959400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr15:39958200-39959400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr15:39958200-39959400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr15:39958200-39959400	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr15:39958200-39959600	Enhancers	Muscle Satellite Cultured Cells	--
19	chr15:39958200-39959800	Enhancers	Fetal Lung	lung
20	chr15:39958200-39959800	Enhancers	NH-A	brain
21	chr15:39958200-39960200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr15:39958200-39961000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr15:39958400-39959400	Enhancers	Osteobl	bone
24	chr15:39958400-39959800	Enhancers	Aorta	Aorta
25	chr15:39958400-39960000	Enhancers	Fetal Kidney	kidney
26	chr15:39958400-39960200	Enhancers	HSMM	muscle
27	chr15:39958600-39959800	Weak transcription	Liver	Liver
28	chr15:39958600-39960200	Enhancers	Colon Smooth Muscle	Colon
29	chr15:39958800-39959400	Enhancers	Rectal Smooth Muscle	rectum
30	chr15:39958800-39960000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr15:39958800-39960000	Enhancers	Fetal Stomach	stomach
32	chr15:39958800-39960000	Enhancers	Stomach Smooth Muscle	stomach
33	chr15:39958800-39960200	Enhancers	NHDF-Ad	bronchial
34	chr15:39959000-39959400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:39959000-39959800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr15:39959000-39959800	Enhancers	NHLF	lung
37	chr15:39959000-39960000	Enhancers	H1 Cell Line	embryonic stem cell
38	chr15:39959000-39960200	Enhancers	H9 Cell Line	embryonic stem cell
39	chr15:39959200-39959800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr15:39959200-39959800	Enhancers	iPS-20b Cell Line	embryonic stem cell
41	chr15:39959200-39960000	Enhancers	Right Atrium	heart
42	chr15:39959200-39960200	Enhancers	HUES48 Cell Line	embryonic stem cell
43	chr15:39959200-39960200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr15:39959200-39960400	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr15:39959200-39960800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr15:39959200-39961200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links