Variant report

Variant	rs11654581
Chromosome Location	chr17:59904796-59904797
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:108740610..108742297-chr17:59904544..59907278,2	MCF-7	breast:
2	chr17:59897032..59900869-chr17:59902920..59905973,5	MCF-7	breast:
3	chr17:59900956..59905139-chr17:59907699..59912131,8	MCF-7	breast:
4	chr17:59713070..59714030-chr17:59904455..59905249,2	MCF-7	breast:
5	chr17:59738960..59741122-chr17:59903243..59905163,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10515212	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11652477	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11656805	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12452044	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12452396	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17542001	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17614124	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2066962	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4968453	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56267713	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56294609	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56391142	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58426748	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7223607	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72843728	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72843731	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72843735	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72843752	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72843757	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8075585	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8076727	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8076746	0.98[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378293	chr17:59744117-60124899	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv908673	chr17:59767501-59926645	Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	94 gene(s)	inside rSNPs	diseases
3	nsv575841	chr17:59812748-59914681	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases
4	nsv575842	chr17:59812748-59927307	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	70 gene(s)	inside rSNPs	diseases
5	nsv908675	chr17:59835864-59937286	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	67 gene(s)	inside rSNPs	diseases
6	esv1794309	chr17:59861640-59907952	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region	32 gene(s)	inside rSNPs	diseases
7	nsv575843	chr17:59869081-59935723	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
8	nsv916786	chr17:59890834-60103687	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	116 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:59848800-59911200	Weak transcription	HUVEC	blood vessel
2	chr17:59863600-59925000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr17:59870400-59933400	Weak transcription	Fetal Intestine Large	intestine
4	chr17:59873200-59905000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr17:59874400-59910600	Weak transcription	Hela-S3	cervix
6	chr17:59884200-59933200	Weak transcription	K562	blood
7	chr17:59887600-59905200	Weak transcription	Fetal Lung	lung
8	chr17:59887800-59911000	Weak transcription	NH-A	brain
9	chr17:59888000-59910400	Weak transcription	NHEK	skin
10	chr17:59888000-59911000	Weak transcription	NHLF	lung
11	chr17:59888000-59911400	Weak transcription	HSMM	muscle
12	chr17:59891000-59905200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr17:59891000-59911000	Weak transcription	NHDF-Ad	bronchial
14	chr17:59894000-59905200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr17:59894000-59905400	Weak transcription	HepG2	liver
16	chr17:59894000-59910600	Weak transcription	HMEC	breast
17	chr17:59894000-59922400	Weak transcription	Osteobl	bone
18	chr17:59894800-59922000	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr17:59898200-59912000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr17:59898800-59904800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr17:59898800-59904800	Weak transcription	A549	lung
22	chr17:59898800-59905200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr17:59898800-59905600	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr17:59898800-59911200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr17:59898800-59914400	Weak transcription	Primary B cells from cord blood	blood
26	chr17:59898800-59920800	Weak transcription	Thymus	Thymus
27	chr17:59898800-59939600	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr17:59898800-59939800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr17:59899000-59905000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr17:59899200-59905000	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr17:59899200-59905000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr17:59899200-59905200	Weak transcription	Primary hematopoietic stem cells	blood
33	chr17:59899200-59905400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr17:59899200-59911200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr17:59899200-59919000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr17:59899400-59905200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr17:59899400-59908600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr17:59899400-59920600	Weak transcription	Fetal Thymus	thymus
39	chr17:59899400-59924200	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr17:59899600-59905200	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr17:59900600-59904800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr17:59900600-59911600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr17:59900800-59905000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr17:59900800-59905000	Weak transcription	Dnd41	blood
45	chr17:59901800-59907800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr17:59903600-59905200	Weak transcription	Primary T cells from cord blood	blood
47	chr17:59903800-59906400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr17:59904200-59927000	Weak transcription	Fetal Kidney	kidney
49	chr17:59904400-59906000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr17:59904600-59905400	Strong transcription	Cortex derived primary cultured neurospheres	brain

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