Variant report

Variant	rs1613925
Chromosome Location	chr15:52779915-52779916
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52777384..52780171-chr15:52780757..52785344,4	MCF-7	breast:
2	chr15:52779012..52781482-chr15:52782947..52786199,3	K562	blood:

Extended variants
information (count: 6 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs1724638	0.83[AFR][1000 genomes]
rs2453986	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv1832020	chr15:52702400-52901914	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1613925	ARPP19	cis	Nerve Tibial	GTEx
rs1613925	MYO5A	Cis_1M	lymphoblastoid	RTeQTL
rs1613925	ARPP-19	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52772200-52781600	Weak transcription	Colonic Mucosa	Colon
2	chr15:52774600-52783800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr15:52774600-52802600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:52774800-52780000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr15:52774800-52783200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr15:52775200-52788400	Weak transcription	Primary B cells from cord blood	blood
7	chr15:52776000-52780000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:52776000-52780600	Weak transcription	Primary T cells from cord blood	blood
9	chr15:52776000-52783800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr15:52776200-52780000	Weak transcription	Fetal Thymus	thymus
11	chr15:52776200-52780400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr15:52776400-52780000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr15:52776400-52780000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr15:52776400-52780800	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr15:52776400-52789000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr15:52776400-52796200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr15:52776600-52783800	Enhancers	HUVEC	blood vessel
18	chr15:52776800-52788800	Weak transcription	Osteobl	bone
19	chr15:52777000-52780000	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr15:52777000-52783400	Weak transcription	NHDF-Ad	bronchial
21	chr15:52777600-52780000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr15:52778000-52781200	Enhancers	Brain Substantia Nigra	brain
23	chr15:52778000-52781400	Enhancers	Brain Anterior Caudate	brain
24	chr15:52778000-52781800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
25	chr15:52778200-52780200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:52778200-52780200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr15:52778200-52780200	Enhancers	Brain Angular Gyrus	brain
28	chr15:52778400-52780000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
29	chr15:52778400-52780600	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr15:52778400-52780800	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr15:52778400-52781600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr15:52778400-52782600	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr15:52778600-52780000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr15:52778600-52780200	Enhancers	Right Atrium	heart
35	chr15:52778600-52780600	Enhancers	Brain Hippocampus Middle	brain
36	chr15:52778600-52782000	Enhancers	Fetal Heart	heart
37	chr15:52778600-52783000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr15:52778600-52786200	Weak transcription	Adipose Nuclei	Adipose
39	chr15:52778600-52786200	Weak transcription	A549	lung
40	chr15:52778600-52788600	Weak transcription	Psoas Muscle	Psoas
41	chr15:52778600-52788800	Weak transcription	HSMMtube	muscle
42	chr15:52778600-52812400	Weak transcription	Right Ventricle	heart
43	chr15:52778800-52780600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr15:52778800-52783800	Weak transcription	HSMM	muscle
45	chr15:52779000-52780200	Enhancers	Left Ventricle	heart
46	chr15:52779000-52780200	Enhancers	GM12878-XiMat	blood
47	chr15:52779000-52783000	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr15:52779000-52783400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr15:52779200-52780000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr15:52779200-52780000	Weak transcription	Primary T helper cells PMA-I stimulated	--

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