Variant report

Variant	rs73393297
Chromosome Location	chr15:39961031-39961032
allele	A/C
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:33)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:33 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:39960830..39961348-chr15:40081129..40081640,2	MCF-7	breast:
2	chr15:39826320..39827146-chr15:39960376..39961308,5	MCF-7	breast:
3	chr15:39960405..39961195-chr15:40076760..40077309,2	MCF-7	breast:
4	chr15:39922048..39922709-chr15:39960306..39961692,3	MCF-7	breast:
5	chr15:39959771..39962008-chr15:40012951..40014930,2	MCF-7	breast:
6	chr15:39920700..39923129-chr15:39958970..39962199,4	MCF-7	breast:
7	chr15:39870612..39877795-chr15:39952369..39962860,18	MCF-7	breast:
8	chr15:39920057..39920589-chr15:39960433..39961124,2	MCF-7	breast:
9	chr15:39960769..39961272-chr15:39978857..39979489,2	MCF-7	breast:
10	chr15:39913171..39923947-chr15:39954798..39966806,32	MCF-7	breast:
11	chr15:39921577..39922481-chr15:39960668..39961289,3	MCF-7	breast:
12	chr15:39826320..39827146-chr15:39960589..39961263,4	MCF-7	breast:
13	chr15:39960376..39961266-chr15:40081056..40081843,2	MCF-7	breast:
14	chr15:39890163..39892186-chr15:39958834..39961393,2	MCF-7	breast:
15	chr15:39926188..39928117-chr15:39960668..39962621,2	MCF-7	breast:
16	chr15:39892943..39897047-chr15:39958260..39961815,3	MCF-7	breast:
17	chr15:38885388..38886106-chr15:39960478..39961288,3	MCF-7	breast:
18	chr15:39722154..39722685-chr15:39960642..39961199,2	MCF-7	breast:
19	chr15:39878927..39880641-chr15:39959246..39961103,2	MCF-7	breast:
20	chr15:39960300..39964337-chr15:39967513..39971099,4	K562	blood:
21	chr15:39888232..39889117-chr15:39960523..39961284,6	MCF-7	breast:
22	chr15:39888267..39889233-chr15:39960437..39961272,3	MCF-7	breast:
23	chr15:39916809..39917658-chr15:39960492..39961308,2	MCF-7	breast:
24	chr15:39826274..39827051-chr15:39960470..39961265,3	MCF-7	breast:
25	chr15:39916809..39917704-chr15:39960492..39961308,3	MCF-7	breast:
26	chr15:39946692..39947398-chr15:39960604..39961226,2	MCF-7	breast:
27	chr15:39920056..39920589-chr15:39960433..39961135,3	MCF-7	breast:
28	chr15:38885388..38886263-chr15:39960766..39961288,3	MCF-7	breast:
29	chr15:39888268..39889233-chr15:39960410..39961213,3	MCF-7	breast:
30	chr15:39864703..39865547-chr15:39960441..39961378,3	MCF-7	breast:
31	chr15:39920079..39920917-chr15:39960384..39961046,3	MCF-7	breast:
32	chr15:39921577..39922712-chr15:39960446..39961289,4	MCF-7	breast:
33	chr15:39960868..39962395-chr15:39964357..39966165,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction
ENSG00000150667	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	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7174422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393276	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393277	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393289	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393295	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8029851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8030230	1.00[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:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39956800-39961400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr15:39957600-39961200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:39959200-39961200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr15:39959400-39962800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:39959800-39961400	Enhancers	Liver	Liver
6	chr15:39959800-39961600	Weak transcription	Aorta	Aorta
7	chr15:39960000-39961200	Weak transcription	Lung	lung
8	chr15:39960000-39961200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:39960000-39961400	Weak transcription	Fetal Kidney	kidney
10	chr15:39960200-39961200	Weak transcription	Spleen	Spleen
11	chr15:39960200-39961400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:39960200-39962400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:39960200-39964400	Weak transcription	HSMM	muscle
14	chr15:39960200-39972600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr15:39960800-39961600	Enhancers	Left Ventricle	heart
16	chr15:39960800-39961600	Enhancers	Ovary	ovary
17	chr15:39960800-39961600	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr15:39960800-39962200	Enhancers	Rectal Smooth Muscle	rectum
19	chr15:39960800-39963000	Enhancers	Fetal Lung	lung
20	chr15:39961000-39964200	Weak transcription	HSMMtube	muscle

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