Variant report

Variant	rs12898553
Chromosome Location	chr15:56142085-56142086
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56130240..56132919-chr15:56139346..56142252,2	K562	blood:

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

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

rs_ID	r²[population]
rs17238482	1.00[ASN][1000 genomes]
rs17238489	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs17819282	0.91[ASN][1000 genomes]
rs17819300	0.89[ASN][1000 genomes]
rs55782406	0.87[ASN][1000 genomes]
rs62043760	0.98[ASN][1000 genomes]
rs62043761	0.98[ASN][1000 genomes]
rs62043763	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62043764	1.00[ASN][1000 genomes]
rs62043792	0.96[ASN][1000 genomes]
rs62043793	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs62043796	0.96[ASN][1000 genomes]
rs62043801	0.93[ASN][1000 genomes]
rs62043802	0.93[ASN][1000 genomes]
rs62043810	0.91[ASN][1000 genomes]
rs62043815	0.91[ASN][1000 genomes]
rs62043816	0.91[ASN][1000 genomes]
rs62043847	0.89[ASN][1000 genomes]
rs62043854	0.89[ASN][1000 genomes]
rs62046648	0.87[ASN][1000 genomes]
rs62046649	0.87[ASN][1000 genomes]
rs62046650	0.87[ASN][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	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv833017	chr15:55965957-56157912	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56115400-56148000	Weak transcription	Ovary	ovary
2	chr15:56116600-56150600	Weak transcription	Right Ventricle	heart
3	chr15:56116800-56162200	Weak transcription	Fetal Heart	heart
4	chr15:56118600-56151000	Weak transcription	Fetal Kidney	kidney
5	chr15:56118800-56147000	Weak transcription	Gastric	stomach
6	chr15:56118800-56149200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr15:56118800-56151400	Weak transcription	Brain Anterior Caudate	brain
8	chr15:56120000-56144800	Strong transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:56120000-56147800	Weak transcription	HepG2	liver
10	chr15:56120600-56146600	Weak transcription	Pancreas	Pancrea
11	chr15:56120800-56147200	Weak transcription	Thymus	Thymus
12	chr15:56121200-56147200	Weak transcription	Spleen	Spleen
13	chr15:56122400-56145200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:56122600-56152000	Weak transcription	Fetal Thymus	thymus
15	chr15:56122600-56153800	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr15:56122600-56154800	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr15:56122600-56156600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr15:56122800-56147200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr15:56122800-56147600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:56122800-56156000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr15:56127200-56155400	Strong transcription	Osteobl	bone
22	chr15:56127200-56155800	Strong transcription	HSMM	muscle
23	chr15:56129000-56157400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr15:56129600-56147400	Weak transcription	Esophagus	oesophagus
25	chr15:56129800-56146600	Weak transcription	NHLF	lung
26	chr15:56132000-56164800	Weak transcription	Small Intestine	intestine
27	chr15:56133000-56142600	Weak transcription	Hela-S3	cervix
28	chr15:56133000-56152600	Weak transcription	Brain Hippocampus Middle	brain
29	chr15:56133600-56154400	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr15:56134200-56150600	Weak transcription	Left Ventricle	heart
31	chr15:56134400-56147400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr15:56134400-56150000	Weak transcription	Psoas Muscle	Psoas
33	chr15:56134400-56156600	Weak transcription	Colon Smooth Muscle	Colon
34	chr15:56134800-56151800	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr15:56135000-56156600	Weak transcription	Rectal Smooth Muscle	rectum
36	chr15:56135200-56146000	Weak transcription	Fetal Muscle Trunk	muscle
37	chr15:56135200-56152600	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr15:56135400-56147800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr15:56135600-56142800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr15:56135600-56145400	Weak transcription	HUVEC	blood vessel
41	chr15:56136200-56143800	Weak transcription	Primary T cells from cord blood	blood
42	chr15:56136400-56145800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr15:56138200-56161800	Weak transcription	K562	blood
44	chr15:56138400-56149000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:56138600-56144600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:56138600-56145000	Strong transcription	Fetal Intestine Large	intestine
47	chr15:56138600-56154400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr15:56138800-56152800	Weak transcription	GM12878-XiMat	blood
49	chr15:56139400-56144800	Strong transcription	Liver	Liver
50	chr15:56139400-56155400	Strong transcription	Primary neutrophils fromperipheralblood	blood

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