Variant report

Variant	rs56273151
Chromosome Location	chr15:51264660-51264661
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs16963979	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28865017	1.00[AMR][1000 genomes]
rs55683982	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55735813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55742119	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55763666	1.00[AMR][1000 genomes]
rs55912100	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55920356	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55940433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55973448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56010315	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56017509	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56046825	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56049414	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56056949	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56121717	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56222335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56283133	1.00[AMR][1000 genomes]
rs56289716	1.00[AMR][1000 genomes]
rs56374503	1.00[AMR][1000 genomes]
rs56813592	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57221782	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57305511	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57322405	0.86[AFR][1000 genomes]
rs57499524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57831362	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57949904	1.00[AMR][1000 genomes]
rs58651255	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59067851	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59155793	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59364110	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59681404	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59843670	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59865784	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60037205	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60253924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60297574	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60700183	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60775199	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61106666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61698311	1.00[AMR][1000 genomes]
rs6493467	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7171301	1.00[AMR][1000 genomes]
rs7174066	1.00[AMR][1000 genomes]
rs7175547	1.00[AMR][1000 genomes]
rs74012820	1.00[AMR][1000 genomes]
rs74012821	1.00[AMR][1000 genomes]
rs74013114	1.00[AMR][1000 genomes]
rs74013115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013125	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013127	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013128	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013130	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013132	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013134	0.86[AFR][1000 genomes]
rs74013136	0.86[AFR][1000 genomes]
rs74015214	1.00[AMR][1000 genomes]
rs74015215	1.00[AMR][1000 genomes]
rs74015226	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015228	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015229	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015230	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015232	1.00[AMR][1000 genomes]
rs74015235	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047443	chr15:50744781-51647023	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	nsv457136	chr15:50789125-51294995	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv569398	chr15:50789125-51294995	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv569399	chr15:50874964-51562198	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
5	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	nsv529339	chr15:51048579-51270372	Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
7	nsv428636	chr15:51154834-51298044	Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers 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	24 gene(s)	inside rSNPs	diseases
8	nsv569403	chr15:51191421-51304373	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv1038778	chr15:51196641-51356728	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers 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	22 gene(s)	inside rSNPs	diseases
10	nsv904214	chr15:51204364-51535192	Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
11	nsv569404	chr15:51234595-51294995	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51201800-51271600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:51210600-51298400	Weak transcription	Stomach Mucosa	stomach
3	chr15:51243800-51283000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr15:51250400-51264800	Weak transcription	NHEK	skin
5	chr15:51252400-51283800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:51253400-51265600	Weak transcription	HMEC	breast
7	chr15:51257600-51264800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:51257600-51264800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr15:51257600-51272800	Weak transcription	Pancreas	Pancrea
10	chr15:51259600-51265200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
11	chr15:51259800-51267000	Strong transcription	Placenta	Placenta
12	chr15:51260400-51267000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:51260600-51268400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr15:51260800-51264800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr15:51260800-51265800	Strong transcription	Stomach Smooth Muscle	stomach
16	chr15:51260800-51268000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:51261000-51265200	Strong transcription	Fetal Thymus	thymus
18	chr15:51261000-51269200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:51261200-51265400	ZNF genes & repeats	Fetal Brain Female	brain
20	chr15:51261200-51265400	Strong transcription	HSMM	muscle
21	chr15:51261200-51268200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
22	chr15:51261400-51265600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:51261400-51265600	Strong transcription	Fetal Lung	lung
24	chr15:51261400-51266200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
25	chr15:51261600-51272800	Weak transcription	Colonic Mucosa	Colon
26	chr15:51261600-51295600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr15:51261600-51298200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr15:51261800-51265000	Weak transcription	Brain Angular Gyrus	brain
29	chr15:51262000-51265600	ZNF genes & repeats	Primary B cells from peripheral blood	blood
30	chr15:51262200-51264800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr15:51262200-51264800	Weak transcription	Gastric	stomach
32	chr15:51262200-51265000	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
33	chr15:51262200-51265000	ZNF genes & repeats	Brain Anterior Caudate	brain
34	chr15:51262200-51265200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
35	chr15:51262200-51265600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:51262200-51266000	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
37	chr15:51262200-51267000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
38	chr15:51262400-51265200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
39	chr15:51262400-51265200	ZNF genes & repeats	Brain Hippocampus Middle	brain
40	chr15:51262400-51265400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr15:51262400-51265800	ZNF genes & repeats	GM12878-XiMat	blood
42	chr15:51262800-51265000	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
43	chr15:51262800-51265200	ZNF genes & repeats	A549	lung
44	chr15:51263000-51265200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
45	chr15:51263000-51304800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr15:51263200-51265200	ZNF genes & repeats	Duodenum Mucosa	Duodenum
47	chr15:51263200-51266000	Weak transcription	Hela-S3	cervix
48	chr15:51263200-51276000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr15:51263400-51264800	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr15:51263400-51281000	Weak transcription	Fetal Heart	heart

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