Variant report

Variant	rs2593176
Chromosome Location	chr15:52208622-52208623
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52200373..52205275-chr15:52207046..52209976,5	MCF-7	breast:
2	chr15:52028872..52030419-chr15:52208467..52211235,2	MCF-7	breast:
3	chr15:52074976..52076569-chr15:52208356..52211198,2	MCF-7	breast:
4	chr15:52120896..52123306-chr15:52207319..52209844,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAPK6-3	chr15:52208071-52209290	NONHSAT043887

Variant related genes	Relation type
ENSG00000259185	Chromatin interaction
ENSG00000128872	Chromatin interaction
ENSG00000140280	Chromatin interaction
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 141 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs1025185	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10519323	1.00[EUR][1000 genomes]
rs10519325	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10519326	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438469	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12442283	1.00[EUR][1000 genomes]
rs1378891	1.00[EUR][1000 genomes]
rs1426085	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1426086	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17649047	1.00[EUR][1000 genomes]
rs17649178	1.00[EUR][1000 genomes]
rs17649255	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17649391	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17649692	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17649801	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17705530	1.00[EUR][1000 genomes]
rs17705649	1.00[EUR][1000 genomes]
rs17705685	1.00[EUR][1000 genomes]
rs17705889	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17706076	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1867985	0.81[AFR][1000 genomes]
rs2052707	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2162224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2250797	0.87[AMR][1000 genomes]
rs2263946	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2436663	0.81[AFR][1000 genomes]
rs2436664	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2470609	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2470613	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2554309	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554310	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554311	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554312	0.87[AFR][1000 genomes]
rs2554317	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2554318	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2554319	0.87[AFR][1000 genomes]
rs2554320	0.87[AFR][1000 genomes]
rs2554321	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2554323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554324	0.81[AFR][1000 genomes]
rs2554325	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2554326	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2554329	0.81[AFR][1000 genomes]
rs2554330	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2554333	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554338	0.80[AMR][1000 genomes]
rs2554341	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2554344	0.81[AFR][1000 genomes]
rs2554346	0.81[AFR][1000 genomes]
rs2554351	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554352	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554356	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2570218	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570219	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570220	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570221	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570222	0.87[AFR][1000 genomes]
rs2570223	0.87[AFR][1000 genomes]
rs2570225	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2570227	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570232	0.81[AFR][1000 genomes]
rs2570234	0.97[ASN][1000 genomes]
rs2570242	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570244	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2570245	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2570247	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2570249	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2570250	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2570256	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570257	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570259	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570261	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570262	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2570266	0.87[AFR][1000 genomes]
rs2570267	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2570270	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2570272	0.81[AFR][1000 genomes]
rs2570273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570274	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2593165	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593171	0.87[AFR][1000 genomes]
rs2593172	0.87[AFR][1000 genomes]
rs2593175	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593178	0.84[AFR][1000 genomes]
rs2593180	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593186	0.81[AFR][1000 genomes]
rs2593196	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2623246	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2623248	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2623250	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623252	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623253	0.97[ASN][1000 genomes]
rs2623257	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2623260	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623261	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2623264	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623267	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2623268	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623269	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2623273	0.81[AFR][1000 genomes]
rs2623274	0.81[AFR][1000 genomes]
rs2623275	0.81[AFR][1000 genomes]
rs2623277	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623290	0.87[AFR][1000 genomes]
rs2623293	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2899483	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2916174	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959297	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2959303	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3099570	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34407523	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35487339	0.82[AMR][1000 genomes]
rs3794533	1.00[EUR][1000 genomes]
rs3794537	1.00[EUR][1000 genomes]
rs4774600	1.00[EUR][1000 genomes]
rs4774601	1.00[EUR][1000 genomes]
rs4775979	1.00[EUR][1000 genomes]
rs4775987	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775988	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4775989	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7166322	1.00[EUR][1000 genomes]
rs7170429	1.00[EUR][1000 genomes]
rs7170700	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7173661	1.00[EUR][1000 genomes]
rs7179139	1.00[EUR][1000 genomes]
rs73396698	0.81[AFR][1000 genomes]
rs73411105	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74013606	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8024441	1.00[EUR][1000 genomes]
rs8026507	1.00[EUR][1000 genomes]
rs8027426	1.00[EUR][1000 genomes]
rs8042310	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs919056	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs919057	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs919058	0.81[AFR][1000 genomes]
rs990666	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv2830255	chr15:52133914-52274863	Weak transcription Flanking Active TSS Strong transcription 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

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52156000-52211000	Weak transcription	Brain Substantia Nigra	brain
2	chr15:52167200-52210800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr15:52171000-52210800	Weak transcription	Right Ventricle	heart
4	chr15:52177200-52213600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr15:52178800-52216600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:52179600-52259800	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr15:52179800-52218600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr15:52180400-52218200	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr15:52181200-52221000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr15:52183200-52223000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:52186400-52219000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:52187800-52212000	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr15:52191000-52222800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr15:52192800-52213600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr15:52193400-52209800	Weak transcription	HSMMtube	muscle
16	chr15:52193400-52210800	Weak transcription	Brain Germinal Matrix	brain
17	chr15:52193400-52227800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr15:52193400-52232800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr15:52193600-52233600	Weak transcription	Fetal Brain Male	brain
20	chr15:52193800-52210400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:52193800-52216200	Weak transcription	Brain Hippocampus Middle	brain
22	chr15:52194200-52228200	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr15:52194200-52231600	Weak transcription	Psoas Muscle	Psoas
24	chr15:52194400-52209400	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr15:52194400-52236800	Weak transcription	Fetal Kidney	kidney
26	chr15:52194400-52239000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr15:52194600-52210600	Weak transcription	Brain Anterior Caudate	brain
28	chr15:52194800-52210400	Weak transcription	Fetal Brain Female	brain
29	chr15:52196200-52234000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr15:52197000-52209000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr15:52197000-52234200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr15:52197000-52234800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:52197600-52209000	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr15:52197600-52210800	Weak transcription	Small Intestine	intestine
35	chr15:52198400-52219000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr15:52200000-52213800	Weak transcription	NHLF	lung
37	chr15:52200200-52210800	Weak transcription	Pancreas	Pancrea
38	chr15:52200200-52213000	Weak transcription	Gastric	stomach
39	chr15:52200400-52213600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr15:52200400-52220800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr15:52200400-52262200	Weak transcription	Stomach Mucosa	stomach
42	chr15:52200600-52210600	Weak transcription	Aorta	Aorta
43	chr15:52200600-52213600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr15:52200600-52213600	Weak transcription	HUVEC	blood vessel
45	chr15:52200800-52209800	Weak transcription	K562	blood
46	chr15:52201000-52216200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr15:52201000-52238800	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr15:52201200-52215600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr15:52201400-52217800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr15:52201600-52209600	Strong transcription	A549	lung

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