Variant report

Variant	rs2570232
Chromosome Location	chr15:52112359-52112360
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52110163..52112996-chr15:52119410..52123831,4	K562	blood:

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs1350173	0.85[EUR][1000 genomes]
rs1426085	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs16953082	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[EUR][1000 genomes]
rs16964486	1.00[CEU][hapmap]
rs16964488	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs16964505	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs16964506	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs16964507	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs16964508	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs16964510	0.84[EUR][1000 genomes]
rs16964518	0.84[EUR][1000 genomes]
rs16964523	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[MEX][hapmap]
rs16964528	0.82[EUR][1000 genomes]
rs16964532	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[EUR][1000 genomes]
rs16964555	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs16964561	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs16964579	0.84[EUR][1000 genomes]
rs16964585	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs16964596	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs17649047	1.00[CHD][hapmap];0.81[MEX][hapmap]
rs17649208	1.00[CHB][hapmap]
rs17649255	0.89[CHD][hapmap];0.82[AMR][1000 genomes]
rs17705373	1.00[CEU][hapmap]
rs17705530	1.00[CHB][hapmap]
rs17705685	1.00[CHB][hapmap]
rs1867985	0.93[YRI][hapmap]
rs2162224	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2246726	0.82[MEX][hapmap]
rs2263946	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2414115	1.00[CEU][hapmap]
rs2436663	1.00[YRI][hapmap]
rs2436664	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2470592	0.93[YRI][hapmap]
rs2554309	0.93[YRI][hapmap];0.85[AMR][1000 genomes]
rs2554310	0.93[YRI][hapmap];0.85[AMR][1000 genomes]
rs2554311	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554319	1.00[YRI][hapmap]
rs2554321	0.87[ASW][hapmap];0.91[MEX][hapmap];0.93[YRI][hapmap]
rs2554323	0.81[AFR][1000 genomes]
rs2554324	1.00[YRI][hapmap]
rs2554325	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554326	0.85[AMR][1000 genomes]
rs2554329	1.00[YRI][hapmap]
rs2554330	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554331	0.86[YRI][hapmap]
rs2554333	1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554341	0.87[ASW][hapmap];0.82[LWK][hapmap];0.91[MEX][hapmap];0.93[YRI][hapmap]
rs2554346	0.93[YRI][hapmap]
rs2554351	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554352	1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554356	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2554357	0.93[YRI][hapmap]
rs2570218	0.82[LWK][hapmap];0.91[MEX][hapmap];1.00[YRI][hapmap]
rs2570219	0.85[AMR][1000 genomes]
rs2570220	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2570221	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2570225	0.82[AMR][1000 genomes]
rs2570227	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570234	0.90[AMR][1000 genomes]
rs2570242	0.89[CHD][hapmap];0.91[MEX][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570244	1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570245	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570246	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2570247	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570249	0.88[CHD][hapmap];0.82[MEX][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570250	0.89[CHD][hapmap];0.82[LWK][hapmap];0.91[MEX][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570256	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570257	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570259	0.85[AMR][1000 genomes]
rs2570261	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2570267	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2570270	0.93[YRI][hapmap]
rs2570272	0.93[YRI][hapmap]
rs2570273	0.82[LWK][hapmap];0.82[MEX][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2593165	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2593171	1.00[YRI][hapmap]
rs2593175	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2593176	0.81[AFR][1000 genomes]
rs2593180	0.81[AFR][1000 genomes]
rs2593186	0.93[YRI][hapmap]
rs2623246	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2623248	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2623250	0.89[CHD][hapmap];0.82[LWK][hapmap];0.91[MEX][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2623252	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2623253	0.90[AMR][1000 genomes]
rs2623256	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623260	0.82[AMR][1000 genomes]
rs2623261	0.80[AMR][1000 genomes]
rs2623264	1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2623267	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2623268	0.85[AMR][1000 genomes]
rs2623269	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2623274	1.00[YRI][hapmap]
rs2623277	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2623278	0.81[AFR][1000 genomes]
rs2623287	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2623290	1.00[YRI][hapmap]
rs2623293	0.93[YRI][hapmap]
rs2899478	1.00[CEU][hapmap]
rs2916174	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2959303	0.82[AMR][1000 genomes]
rs3751595	1.00[CEU][hapmap]
rs4775971	1.00[CEU][hapmap];0.81[CHD][hapmap];0.80[EUR][1000 genomes]
rs56221158	0.86[EUR][1000 genomes]
rs60398357	0.81[EUR][1000 genomes]
rs7165594	1.00[CEU][hapmap]
rs7166322	1.00[CHD][hapmap];0.81[MEX][hapmap];0.84[AMR][1000 genomes]
rs7167759	1.00[CEU][hapmap]
rs7170429	0.82[AMR][1000 genomes]
rs7170700	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs7173661	1.00[CHD][hapmap];0.81[MEX][hapmap]
rs7174616	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7175121	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs73405349	0.81[EUR][1000 genomes]
rs73405355	0.81[EUR][1000 genomes]
rs73405356	0.81[EUR][1000 genomes]
rs73405364	0.83[EUR][1000 genomes]
rs73405388	0.85[EUR][1000 genomes]
rs73411105	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7342575	1.00[CEU][hapmap]
rs74015721	0.81[EUR][1000 genomes]
rs74015757	0.80[EUR][1000 genomes]
rs74015761	0.80[EUR][1000 genomes]
rs7496198	0.81[EUR][1000 genomes]
rs8027426	1.00[CHD][hapmap];0.81[MEX][hapmap]
rs919056	0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs919057	0.91[MEX][hapmap];0.93[YRI][hapmap];0.85[AMR][1000 genomes]
rs990666	0.91[MEX][hapmap];0.93[YRI][hapmap];0.82[AMR][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	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

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52099800-52113800	Weak transcription	Aorta	Aorta
2	chr15:52100000-52113200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr15:52101600-52113000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr15:52102000-52113400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr15:52104400-52113400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr15:52104400-52113600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr15:52105600-52113200	Weak transcription	Primary B cells from cord blood	blood
8	chr15:52106800-52113400	Weak transcription	Brain Germinal Matrix	brain
9	chr15:52107000-52113200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr15:52107000-52113600	Weak transcription	Primary T cells from cord blood	blood
11	chr15:52107000-52113800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:52107200-52112800	Weak transcription	Brain Angular Gyrus	brain
13	chr15:52107200-52113000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr15:52107200-52121400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:52110000-52113800	Weak transcription	Lung	lung
16	chr15:52110600-52113400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr15:52110600-52114800	Weak transcription	Fetal Stomach	stomach
18	chr15:52111400-52117400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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