Variant report

Variant	rs28561508
Chromosome Location	chr15:44790016-44790017
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10152710	0.94[EUR][1000 genomes]
rs1021800	0.94[EUR][1000 genomes]
rs10467977	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12324194	0.83[ASN][1000 genomes]
rs12324710	0.80[ASN][1000 genomes]
rs12591178	1.00[EUR][1000 genomes]
rs12591581	0.94[EUR][1000 genomes]
rs12591811	0.94[EUR][1000 genomes]
rs12592995	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12593125	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12593325	0.94[EUR][1000 genomes]
rs12593686	0.94[EUR][1000 genomes]
rs12593943	0.94[EUR][1000 genomes]
rs12594110	0.94[EUR][1000 genomes]
rs12594139	0.94[EUR][1000 genomes]
rs12594167	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12594621	0.94[EUR][1000 genomes]
rs12594645	0.94[EUR][1000 genomes]
rs12594746	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12594905	0.83[ASN][1000 genomes]
rs12594910	0.83[ASN][1000 genomes]
rs12595484	0.94[EUR][1000 genomes]
rs17551416	0.94[EUR][1000 genomes]
rs2055061	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2288341	0.94[EUR][1000 genomes]
rs2288342	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2303577	0.94[EUR][1000 genomes]
rs2303578	0.87[EUR][1000 genomes]
rs2412883	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2412909	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2433350	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2555353	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2556562	0.93[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2556566	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2556567	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28508235	0.94[EUR][1000 genomes]
rs2899113	0.94[EUR][1000 genomes]
rs2899119	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs35555389	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3784565	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3784567	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3809471	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3816928	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3986142	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3986143	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4415978	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4477677	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4577056	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57270586	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58956090	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59230801	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59997416	0.94[EUR][1000 genomes]
rs60003667	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60399672	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61185650	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61234123	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61258861	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61278540	0.94[EUR][1000 genomes]
rs61329003	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61501839	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6493103	0.82[EUR][1000 genomes]
rs7162671	0.85[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7162802	0.94[EUR][1000 genomes]
rs7163287	0.88[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7163529	0.94[EUR][1000 genomes]
rs7164709	0.94[EUR][1000 genomes]
rs7166278	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7166945	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7167752	0.94[EUR][1000 genomes]
rs7167870	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7169333	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7170248	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7172106	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7175200	0.94[EUR][1000 genomes]
rs7178318	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7179390	0.83[ASN][1000 genomes]
rs7179894	0.94[EUR][1000 genomes]
rs7181772	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7183109	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs73417597	0.83[ASN][1000 genomes]
rs8023453	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8024623	0.94[EUR][1000 genomes]
rs8024805	0.94[EUR][1000 genomes]
rs8025727	0.94[EUR][1000 genomes]
rs8025876	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8025955	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs8026945	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8027036	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8028509	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8028907	0.82[EUR][1000 genomes]
rs8032079	0.94[EUR][1000 genomes]
rs8037395	0.82[EUR][1000 genomes]
rs883943	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9672237	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9673085	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9806511	0.80[ASN][1000 genomes]
rs9806725	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431387	chr15:43929378-44862930	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
2	nsv931051	chr15:43988761-44833518	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	154 gene(s)	inside rSNPs	diseases
3	esv3410956	chr15:44425145-44823647	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv904177	chr15:44582886-44821843	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv904179	chr15:44614684-44821843	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	esv3386433	chr15:44654644-45037538	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	135 gene(s)	inside rSNPs	diseases
7	nsv904180	chr15:44783700-44820054	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44721000-44828000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:44740600-44795600	Weak transcription	Esophagus	oesophagus
3	chr15:44740600-44824600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:44750000-44827400	Weak transcription	Pancreas	Pancrea
5	chr15:44750200-44828000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:44751000-44795400	Weak transcription	Stomach Mucosa	stomach
7	chr15:44754600-44816200	Weak transcription	Brain Angular Gyrus	brain
8	chr15:44757000-44827400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr15:44773400-44791800	Weak transcription	Right Atrium	heart
10	chr15:44774000-44800400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr15:44775800-44820200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:44776000-44793200	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr15:44776200-44792200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr15:44776200-44792600	Strong transcription	Fetal Thymus	thymus
15	chr15:44776200-44793400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr15:44776200-44801400	Strong transcription	Dnd41	blood
17	chr15:44776400-44791800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr15:44776600-44793000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr15:44776600-44793400	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr15:44776600-44793600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr15:44777000-44792800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr15:44777200-44803800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr15:44777600-44801800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr15:44778000-44827800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr15:44778000-44827800	Weak transcription	Psoas Muscle	Psoas
26	chr15:44779000-44791800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr15:44779800-44795600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:44779800-44813600	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr15:44779800-44824200	Weak transcription	Gastric	stomach
30	chr15:44779800-44827800	Weak transcription	Aorta	Aorta
31	chr15:44780000-44792600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr15:44780600-44795400	Weak transcription	Rectal Smooth Muscle	rectum
33	chr15:44781800-44792200	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr15:44782000-44795600	Weak transcription	Brain Substantia Nigra	brain
35	chr15:44782000-44796600	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr15:44782600-44794800	Weak transcription	A549	lung
37	chr15:44782800-44795600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr15:44783000-44793000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr15:44783000-44795000	Weak transcription	NH-A	brain
40	chr15:44783000-44795600	Weak transcription	NHEK	skin
41	chr15:44783200-44790400	Weak transcription	Brain Hippocampus Middle	brain
42	chr15:44783200-44791800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr15:44783200-44792800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr15:44783200-44793000	Strong transcription	Primary T helper cells PMA-I stimulated	--
45	chr15:44783200-44819400	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr15:44783200-44827800	Weak transcription	NHLF	lung
47	chr15:44783400-44795600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:44783600-44828000	Weak transcription	HSMMtube	muscle
49	chr15:44783800-44790200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr15:44783800-44791800	Strong transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links