Variant report

Variant	rs936226
Chromosome Location	chr15:75069282-75069283
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:75067632..75072081-chr15:75073195..75075797,6	MCF-7	breast:
2	chr15:75065072..75069457-chr15:75091713..75095477,3	MCF-7	breast:
3	chr15:74923393..74925278-chr15:75068761..75070889,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103653	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11072502	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11072504	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11072505	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11072509	0.85[EUR][1000 genomes]
rs11634474	0.95[CEU][hapmap];0.87[CHB][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs11636952	0.83[CEU][hapmap]
rs12441505	0.86[EUR][1000 genomes]
rs12442901	0.95[CEU][hapmap];0.90[CHB][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12591078	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1350193	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1378938	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[EUR][1000 genomes]
rs1543927	0.96[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2168519	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2301249	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes]
rs2445618	0.85[AMR][1000 genomes]
rs2472298	0.82[AMR][1000 genomes]
rs2472299	0.82[CEU][hapmap];0.85[AMR][1000 genomes]
rs2472300	0.85[AMR][1000 genomes]
rs3784790	0.90[AFR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3935077	0.83[EUR][1000 genomes]
rs4886406	0.95[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4886619	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[YRI][hapmap];0.86[EUR][1000 genomes]
rs4886629	1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs60001770	0.85[ASN][1000 genomes]
rs7085	1.00[CEU][hapmap];0.86[CHB][hapmap];0.96[YRI][hapmap];0.89[EUR][1000 genomes]
rs7162232	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[YRI][hapmap];0.85[EUR][1000 genomes]
rs7176022	0.95[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs7180484	0.95[CEU][hapmap];0.81[CHB][hapmap];0.93[YRI][hapmap];0.85[EUR][1000 genomes]
rs72730503	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs762551	0.82[CEU][hapmap];0.90[AMR][1000 genomes]
rs8033381	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9210	0.86[CEU][hapmap]
rs936230	0.82[CEU][hapmap]

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	nsv904380	chr15:74869438-75142761	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv833055	chr15:74988344-75166288	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs936226	MPI	cis	multi-tissue	Pritchard
rs936226	COX5A	Cis_1M	lymphoblastoid	RTeQTL
rs936226	ULK3	cis	Whole Blood	GTEx

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75063200-75069400	Enhancers	Primary B cells from peripheral blood	blood
2	chr15:75063200-75069400	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr15:75063400-75069400	Enhancers	Primary T cells fromperipheralblood	blood
4	chr15:75064000-75069400	Weak transcription	Fetal Brain Male	brain
5	chr15:75064400-75069400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr15:75064400-75069400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:75064400-75069400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr15:75065600-75072600	Enhancers	Primary hematopoietic stem cells	blood
9	chr15:75065600-75073200	Weak transcription	Brain Angular Gyrus	brain
10	chr15:75065600-75073600	Enhancers	Fetal Intestine Large	intestine
11	chr15:75065600-75073600	Enhancers	Fetal Intestine Small	intestine
12	chr15:75065800-75069400	Enhancers	Fetal Thymus	thymus
13	chr15:75065800-75072800	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr15:75066200-75069400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:75066200-75069400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr15:75066200-75073000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:75066400-75069400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr15:75066400-75069400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr15:75066400-75069600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr15:75066400-75069800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr15:75066400-75072400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr15:75066400-75072800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr15:75066600-75070000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr15:75066600-75072600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr15:75066800-75069400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:75067200-75072800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:75067400-75071000	Enhancers	Brain Hippocampus Middle	brain
28	chr15:75067400-75074200	Enhancers	Stomach Mucosa	stomach
29	chr15:75067600-75070400	Enhancers	Brain Anterior Caudate	brain
30	chr15:75067600-75070400	Enhancers	Brain Cingulate Gyrus	brain
31	chr15:75067600-75071200	Enhancers	Placenta	Placenta
32	chr15:75067600-75071800	Enhancers	Spleen	Spleen
33	chr15:75067600-75071800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr15:75067800-75069600	Enhancers	Adipose Nuclei	Adipose
35	chr15:75067800-75071800	Enhancers	Small Intestine	intestine
36	chr15:75067800-75072000	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr15:75068000-75069400	Enhancers	Primary T killer memory cells from peripheral blood	blood
38	chr15:75068000-75073200	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr15:75068200-75069400	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr15:75068200-75069400	Enhancers	Dnd41	blood
41	chr15:75068600-75070800	Enhancers	Fetal Muscle Leg	muscle
42	chr15:75068600-75071000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
43	chr15:75068800-75069400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr15:75068800-75070400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr15:75068800-75071200	Enhancers	Esophagus	oesophagus
46	chr15:75068800-75071400	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr15:75068800-75073400	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr15:75069000-75070000	Enhancers	Fetal Heart	heart
49	chr15:75069000-75070200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr15:75069000-75070200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood

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