Variant report

Variant	rs12415924
Chromosome Location	chr10:6113666-6113667
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IL2RA-4	chr10:6113477-6113881	NONHSAT011204

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11256611	0.94[ASN][1000 genomes]
rs12251307	0.94[ASN][1000 genomes]
rs12415242	1.00[AFR][1000 genomes]
rs12569923	1.00[AFR][1000 genomes]
rs12570860	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12572197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12572859	1.00[AFR][1000 genomes]
rs17149458	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs17149718	0.81[ASN][1000 genomes]
rs2274036	1.00[AFR][1000 genomes]
rs34225924	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41294701	1.00[AFR][1000 genomes]
rs41295067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs41295083	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41295107	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41295111	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4749856	1.00[AFR][1000 genomes]
rs61014376	1.00[AFR][1000 genomes]
rs61839680	0.94[ASN][1000 genomes]
rs62626322	1.00[ASN][1000 genomes]
rs8177656	1.00[AFR][1000 genomes]
rs8177688	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv894815	chr10:6108439-6161781	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6106800-6114800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr10:6107200-6114800	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr10:6107200-6115000	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr10:6107400-6114800	Enhancers	Primary hematopoietic stem cells	blood
5	chr10:6108000-6115600	Enhancers	Primary B cells from peripheral blood	blood
6	chr10:6108800-6114200	Weak transcription	Right Ventricle	heart
7	chr10:6109400-6115400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:6109400-6117400	Enhancers	Fetal Thymus	thymus
9	chr10:6111000-6113800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:6111000-6114600	Enhancers	Primary T cells fromperipheralblood	blood
11	chr10:6111000-6115000	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr10:6111200-6114800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr10:6111200-6115000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr10:6111200-6115000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr10:6111400-6114200	Enhancers	Thymus	Thymus
16	chr10:6111400-6115200	Enhancers	Primary B cells from cord blood	blood
17	chr10:6111600-6114400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr10:6111600-6115000	Enhancers	Primary T cells from cord blood	blood
19	chr10:6111600-6115000	Enhancers	Primary T helper naive cells from peripheral blood	blood
20	chr10:6111600-6115200	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr10:6111600-6115200	Enhancers	Dnd41	blood
22	chr10:6112200-6114400	Enhancers	Lung	lung
23	chr10:6112200-6114800	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr10:6112400-6113800	Enhancers	GM12878-XiMat	blood
25	chr10:6112400-6114600	Enhancers	Adipose Nuclei	Adipose
26	chr10:6112400-6114800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr10:6112600-6113800	Enhancers	Sigmoid Colon	Sigmoid Colon
28	chr10:6112600-6114000	Enhancers	Placenta	Placenta
29	chr10:6112600-6114400	Enhancers	Spleen	Spleen
30	chr10:6112800-6114000	Enhancers	Brain Anterior Caudate	brain
31	chr10:6112800-6114400	Enhancers	Left Ventricle	heart
32	chr10:6113000-6113800	Enhancers	Brain Hippocampus Middle	brain
33	chr10:6113000-6115000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr10:6113000-6115200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr10:6113400-6113800	Enhancers	Small Intestine	intestine
36	chr10:6113400-6114000	Enhancers	Right Atrium	heart
37	chr10:6113400-6114600	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr10:6113600-6114000	Weak transcription	Fetal Muscle Leg	muscle
39	chr10:6113600-6114000	Enhancers	Rectal Mucosa Donor 29	rectum
40	chr10:6113600-6114000	Enhancers	Skeletal Muscle Male	skeletal muscle
41	chr10:6113600-6114200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
42	chr10:6113600-6114200	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr10:6113600-6114600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr10:6113600-6115000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
45	chr10:6113600-6115000	Enhancers	Duodenum Mucosa	Duodenum

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