Variant report

Variant	rs3942665
Chromosome Location	chr15:77912942-77912943
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77902198..77904238-chr15:77912623..77914841,2	K562	blood:
2	chr15:77908000..77910749-chr15:77912406..77914677,2	MCF-7	breast:
3	chr15:77912527..77913180-chr15:77925436..77926049,2	MCF-7	breast:
4	chr15:77912184..77913186-chr15:77925455..77926450,5	K562	blood:
5	chr15:77899584..77901870-chr15:77910990..77913716,3	K562	blood:
6	chr15:77904241..77907935-chr15:77912354..77915026,5	K562	blood:
7	chr15:77835384..77837203-chr15:77911255..77913813,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1007538	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11852680	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11854903	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11856978	1.00[ASN][1000 genomes]
rs11856998	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11857045	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16969013	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1877292	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1877293	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1877294	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1877295	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1877298	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1995972	0.90[ASN][1000 genomes]
rs28501538	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28575171	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28575624	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28649029	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28654794	1.00[ASN][1000 genomes]
rs28661259	1.00[ASN][1000 genomes]
rs28674549	0.94[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28684542	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28702901	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28720884	1.00[ASN][1000 genomes]
rs28733160	0.94[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs56037535	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs56209055	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs56929920	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs57354334	0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs60677748	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61079432	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7165679	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7171716	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7182167	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs74025322	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs74025324	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs74025331	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs8023571	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8024724	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs8024932	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8026164	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8027456	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8027963	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9920101	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9920113	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9920127	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9920132	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9920134	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9920869	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv904419	chr15:77897197-77943935	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77901000-77914200	Weak transcription	Right Atrium	heart
2	chr15:77903600-77914000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr15:77904200-77914400	Weak transcription	Brain Substantia Nigra	brain
4	chr15:77904200-77915400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr15:77904600-77914000	Weak transcription	Fetal Lung	lung
6	chr15:77904800-77914200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:77907600-77914400	Weak transcription	Brain Anterior Caudate	brain
8	chr15:77907800-77914000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr15:77907800-77914800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr15:77908000-77914000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr15:77908000-77914000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr15:77908000-77914000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr15:77908000-77914800	Weak transcription	Fetal Intestine Small	intestine
14	chr15:77908000-77918800	Weak transcription	Brain Germinal Matrix	brain
15	chr15:77908200-77914200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:77908400-77914400	Weak transcription	Spleen	Spleen
17	chr15:77909000-77914800	Weak transcription	Fetal Brain Male	brain
18	chr15:77909200-77913800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr15:77909200-77914200	Weak transcription	Fetal Stomach	stomach
20	chr15:77909800-77913800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr15:77909800-77914000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr15:77910200-77914200	Weak transcription	Fetal Muscle Leg	muscle
23	chr15:77910400-77923400	Weak transcription	Pancreas	Pancrea
24	chr15:77910600-77916800	Weak transcription	Fetal Brain Female	brain
25	chr15:77911400-77914000	Enhancers	K562	blood
26	chr15:77911600-77916600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr15:77911800-77914400	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr15:77912000-77914200	Weak transcription	Fetal Heart	heart
29	chr15:77912200-77913200	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr15:77912200-77920200	Enhancers	Brain Angular Gyrus	brain
31	chr15:77912400-77913000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr15:77912600-77913000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr15:77912600-77913000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr15:77912600-77913200	Enhancers	H1 Cell Line	embryonic stem cell
35	chr15:77912600-77913200	Enhancers	Brain Cingulate Gyrus	brain
36	chr15:77912600-77913200	Enhancers	Placenta	Placenta
37	chr15:77912600-77914000	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr15:77912600-77916200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr15:77912600-77916600	Enhancers	ES-I3 Cell Line	embryonic stem cell
40	chr15:77912800-77913000	Flanking Bivalent TSS/Enh	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr15:77912800-77913000	Bivalent Enhancer	HepG2	liver
42	chr15:77912800-77913200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr15:77912800-77913200	Enhancers	Brain Hippocampus Middle	brain
44	chr15:77912800-77913400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
45	chr15:77912800-77914400	Weak transcription	Placenta Amnion	Placenta Amnion

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