Variant report

Variant	rs11856942
Chromosome Location	chr15:52776032-52776033
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	chr15:52774259..52776671-chr15:52790195..52792065,2	MCF-7	breast:
2	chr15:52775070..52777888-chr15:52820871..52822715,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197535	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs4774632	1.00[AMR][1000 genomes]
rs8040558	1.00[CEU][hapmap]

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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11856942	MYO5A	Cis_1M	lymphoblastoid	RTeQTL
rs11856942	ARPP-19	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52759200-52778200	Weak transcription	Right Atrium	heart
2	chr15:52770000-52776600	Enhancers	Primary T cells fromperipheralblood	blood
3	chr15:52770000-52777000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr15:52770800-52776400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr15:52771000-52777000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
6	chr15:52771000-52778000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:52771400-52776200	Enhancers	Fetal Thymus	thymus
8	chr15:52771400-52776400	Enhancers	Primary hematopoietic stem cells	blood
9	chr15:52771400-52776400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr15:52771800-52776200	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr15:52772000-52776400	Enhancers	Primary B cells from peripheral blood	blood
12	chr15:52772000-52776600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr15:52772000-52776800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr15:52772000-52776800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr15:52772000-52777000	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr15:52772000-52777000	Enhancers	NHDF-Ad	bronchial
17	chr15:52772200-52776400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr15:52772200-52776600	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr15:52772200-52781600	Weak transcription	Colonic Mucosa	Colon
20	chr15:52772600-52777200	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr15:52772600-52777200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr15:52772800-52776400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:52772800-52776400	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr15:52772800-52776800	Enhancers	HMEC	breast
25	chr15:52773000-52776200	Enhancers	NHLF	lung
26	chr15:52773000-52776600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr15:52773000-52776600	Enhancers	Brain Anterior Caudate	brain
28	chr15:52773000-52776800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr15:52773000-52776800	Enhancers	Osteobl	bone
30	chr15:52773000-52777000	Enhancers	NHEK	skin
31	chr15:52773200-52776800	Enhancers	NH-A	brain
32	chr15:52773600-52776800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr15:52774000-52776600	Enhancers	HSMMtube	muscle
34	chr15:52774400-52777000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:52774600-52776400	Enhancers	Duodenum Smooth Muscle	Duodenum
36	chr15:52774600-52776600	Enhancers	Primary hematopoietic stem cells short term culture	blood
37	chr15:52774600-52776600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:52774600-52776800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr15:52774600-52777000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr15:52774600-52777000	Enhancers	Monocytes-CD14+_RO01746	blood
41	chr15:52774600-52777200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr15:52774600-52778200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr15:52774600-52778400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr15:52774600-52783800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr15:52774600-52802600	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr15:52774800-52776200	Enhancers	Dnd41	blood
47	chr15:52774800-52776600	Enhancers	Primary T helper cells PMA-I stimulated	--
48	chr15:52774800-52776600	Enhancers	GM12878-XiMat	blood
49	chr15:52774800-52778200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:52774800-52780000	Weak transcription	Rectal Mucosa Donor 31	rectum

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