Variant report

Variant	rs1108808
Chromosome Location	chr15:52602041-52602042
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52599470..52602451-chr15:52610830..52612789,2	K562	blood:
2	chr15:52532801..52535731-chr15:52601515..52603297,2	MCF-7	breast:
3	chr15:52590879..52593445-chr15:52599970..52603838,3	MCF-7	breast:
4	chr15:52600034..52602516-chr15:52612985..52614649,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAPK6-8	chr15:52601801-52602328	NONHSAT043926

Extended variants
information (count: 125 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:124)

rs_ID	r²[population]
rs10518683	1.00[ASN][1000 genomes]
rs10518688	1.00[EUR][1000 genomes]
rs1104800	0.96[ASN][1000 genomes]
rs12101973	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12913979	0.96[ASN][1000 genomes]
rs13329278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13329402	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13329417	1.00[EUR][1000 genomes]
rs13329500	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1669870	0.96[ASN][1000 genomes]
rs1669872	0.96[ASN][1000 genomes]
rs16964891	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964903	1.00[EUR][1000 genomes]
rs16964910	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964915	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16964919	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964921	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964924	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964927	1.00[EUR][1000 genomes]
rs16964928	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964935	1.00[EUR][1000 genomes]
rs16964944	1.00[EUR][1000 genomes]
rs16964952	1.00[EUR][1000 genomes]
rs2242059	0.96[ASN][1000 genomes]
rs2414137	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2414138	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2414145	0.96[ASN][1000 genomes]
rs28366864	1.00[EUR][1000 genomes]
rs28367336	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28367508	1.00[EUR][1000 genomes]
rs28374631	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28409636	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28409760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28415069	1.00[EUR][1000 genomes]
rs28415349	1.00[EUR][1000 genomes]
rs28426997	1.00[EUR][1000 genomes]
rs28444393	1.00[EUR][1000 genomes]
rs28462026	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28475475	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28479614	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28480975	1.00[EUR][1000 genomes]
rs28488423	1.00[EUR][1000 genomes]
rs28496242	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28503750	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28508266	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28514341	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28515624	1.00[EUR][1000 genomes]
rs28532168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28534436	1.00[EUR][1000 genomes]
rs28538563	1.00[EUR][1000 genomes]
rs28552981	1.00[EUR][1000 genomes]
rs28556657	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28564655	1.00[EUR][1000 genomes]
rs28590330	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28594692	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28605633	1.00[EUR][1000 genomes]
rs28618215	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28633243	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28638475	1.00[EUR][1000 genomes]
rs28649737	1.00[EUR][1000 genomes]
rs28650960	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28653534	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28655190	1.00[EUR][1000 genomes]
rs28657676	1.00[AMR][1000 genomes]
rs28660682	1.00[EUR][1000 genomes]
rs28661501	1.00[EUR][1000 genomes]
rs28669685	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28693941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28697879	1.00[EUR][1000 genomes]
rs28735959	1.00[EUR][1000 genomes]
rs28756182	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3764230	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4499185	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4624108	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774621	0.96[ASN][1000 genomes]
rs4987194	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57864537	1.00[EUR][1000 genomes]
rs58029714	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58812575	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7163242	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7163778	0.96[ASN][1000 genomes]
rs7164164	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7164722	1.00[EUR][1000 genomes]
rs7164872	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7166034	1.00[EUR][1000 genomes]
rs7167181	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7167437	0.85[ASN][1000 genomes]
rs7167680	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7167890	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7167916	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7168076	1.00[EUR][1000 genomes]
rs7168251	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7169104	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7169346	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7170622	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7171999	0.96[ASN][1000 genomes]
rs7178069	1.00[EUR][1000 genomes]
rs7179156	1.00[EUR][1000 genomes]
rs7182148	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73408408	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73408415	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73408465	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73408469	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408478	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410713	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73410715	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410759	1.00[EUR][1000 genomes]
rs744501	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8023623	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8024412	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8024624	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8027637	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8027777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030307	0.96[ASN][1000 genomes]
rs8035199	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040369	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040558	0.81[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs8041819	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8042235	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8042245	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs876549	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9744852	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9920739	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9920749	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52588200-52602200	Weak transcription	HSMM	muscle
2	chr15:52588400-52602800	Weak transcription	Aorta	Aorta
3	chr15:52591200-52602400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:52593600-52608600	Weak transcription	Fetal Brain Male	brain
5	chr15:52595200-52605600	Weak transcription	Duodenum Mucosa	Duodenum
6	chr15:52595400-52605600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr15:52595400-52610800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:52595400-52614200	Weak transcription	Fetal Lung	lung
9	chr15:52595600-52603400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr15:52595600-52609800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:52595800-52628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr15:52596000-52602200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr15:52596000-52603000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:52596000-52604800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr15:52596000-52605000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr15:52596000-52605000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr15:52596000-52608400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr15:52596000-52608800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr15:52596000-52611000	Weak transcription	Fetal Stomach	stomach
20	chr15:52596200-52602800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr15:52596200-52623600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr15:52596400-52605000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:52596400-52608600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr15:52597600-52608600	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr15:52597800-52629600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr15:52597800-52643400	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr15:52598200-52602800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr15:52598400-52608400	Weak transcription	Brain Hippocampus Middle	brain
29	chr15:52598800-52602800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr15:52598800-52604400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr15:52599000-52605200	Weak transcription	HMEC	breast
32	chr15:52599000-52605200	Weak transcription	NHEK	skin
33	chr15:52599200-52602800	Weak transcription	Brain Substantia Nigra	brain
34	chr15:52599200-52605000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr15:52599200-52611000	Weak transcription	NHLF	lung
36	chr15:52599400-52611000	Weak transcription	Fetal Thymus	thymus
37	chr15:52599400-52611000	Weak transcription	Thymus	Thymus
38	chr15:52599600-52605400	Weak transcription	Brain Germinal Matrix	brain
39	chr15:52599800-52611000	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr15:52599800-52611000	Weak transcription	A549	lung
41	chr15:52600000-52602200	Enhancers	Primary B cells from peripheral blood	blood
42	chr15:52600400-52602400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:52600400-52607400	Weak transcription	Colon Smooth Muscle	Colon
44	chr15:52600400-52611200	Weak transcription	Colonic Mucosa	Colon
45	chr15:52600600-52602200	Enhancers	Fetal Heart	heart
46	chr15:52600600-52603200	Weak transcription	Brain Angular Gyrus	brain
47	chr15:52600600-52611000	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr15:52600600-52624200	Weak transcription	Liver	Liver
49	chr15:52600800-52603000	Enhancers	NHDF-Ad	bronchial
50	chr15:52600800-52603800	Strong transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links