Variant report

Variant	rs4776037
Chromosome Location	chr15:52640650-52640651
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52640299..52642947-chr15:52856133..52857726,2	MCF-7	breast:
2	chr15:52633711..52635722-chr15:52639445..52641864,2	MCF-7	breast:
3	chr15:52626828..52629025-chr15:52639618..52642359,2	MCF-7	breast:
4	chr15:52627079..52628718-chr15:52639063..52641571,2	K562	blood:
5	chr15:52547210..52549304-chr15:52640088..52643022,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128833	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10083673	0.89[YRI][hapmap]
rs1009157	0.91[CEU][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10467925	0.95[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10518687	0.91[CEU][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12324100	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12324121	0.91[CEU][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12914979	0.91[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1464963	0.89[YRI][hapmap]
rs2242057	0.91[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2242058	0.91[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2414150	0.91[CEU][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs3858907	0.83[CEU][hapmap]
rs4280181	0.91[CEU][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4519295	0.87[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4606660	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4776039	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62015999	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7176482	0.91[CEU][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7176639	0.91[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7182150	0.91[CEU][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs752864	0.82[AMR][1000 genomes]
rs752865	0.91[CEU][hapmap];0.91[EUR][1000 genomes]
rs752866	0.91[CEU][hapmap];0.93[EUR][1000 genomes]
rs8028033	0.91[CEU][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8033626	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8038386	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4776037	MYO5A	Cis_1M	lymphoblastoid	RTeQTL
rs4776037	ARPP-19	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52597800-52643400	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr15:52600800-52646600	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr15:52601000-52643400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr15:52607800-52657800	Weak transcription	Small Intestine	intestine
5	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:52610000-52643400	Weak transcription	Placenta	Placenta
7	chr15:52611600-52650200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:52611800-52675800	Weak transcription	Gastric	stomach
9	chr15:52613000-52642600	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
11	chr15:52614800-52642600	Weak transcription	Esophagus	oesophagus
12	chr15:52614800-52653200	Weak transcription	Colonic Mucosa	Colon
13	chr15:52619800-52641200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr15:52620000-52652200	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr15:52620600-52659200	Weak transcription	Fetal Lung	lung
16	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
17	chr15:52621800-52662200	Weak transcription	Psoas Muscle	Psoas
18	chr15:52623800-52644200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr15:52624200-52641200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr15:52624600-52641200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr15:52624600-52641400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr15:52624600-52642400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr15:52627000-52646600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr15:52627200-52641200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr15:52627400-52641400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr15:52630000-52641400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr15:52630000-52641600	Weak transcription	Primary T cells from cord blood	blood
28	chr15:52630200-52641400	Weak transcription	Brain Angular Gyrus	brain
29	chr15:52630200-52641400	Weak transcription	Osteobl	bone
30	chr15:52630200-52641600	Weak transcription	NHDF-Ad	bronchial
31	chr15:52630600-52641400	Weak transcription	Fetal Thymus	thymus
32	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr15:52631200-52641400	Weak transcription	HMEC	breast
34	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
35	chr15:52632600-52641400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:52632600-52641400	Weak transcription	Fetal Stomach	stomach
37	chr15:52632600-52641400	Weak transcription	Ovary	ovary
38	chr15:52632600-52641400	Weak transcription	Pancreas	Pancrea
39	chr15:52632600-52641400	Weak transcription	Spleen	Spleen
40	chr15:52632600-52641400	Weak transcription	Dnd41	blood
41	chr15:52632600-52643200	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr15:52632600-52643400	Weak transcription	Lung	lung
43	chr15:52632600-52644200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr15:52632600-52670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr15:52632800-52641200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr15:52632800-52641200	Weak transcription	Stomach Smooth Muscle	stomach
47	chr15:52632800-52641400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr15:52632800-52641400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr15:52632800-52641400	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr15:52632800-52641400	Weak transcription	Sigmoid Colon	Sigmoid Colon

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