Variant report

Variant	rs17588305
Chromosome Location	chr15:45021766-45021767
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:44953583..44958025-chr15:45017998..45023674,11	MCF-7	breast:
2	chr15:44911239..44913616-chr15:45019732..45022719,2	MCF-7	breast:
3	chr15:45002519..45006188-chr15:45021478..45023982,4	MCF-7	breast:
4	chr15:44952527..44956177-chr15:45018956..45022716,7	MCF-7	breast:
5	chr15:44952092..44957540-chr15:45017481..45022918,18	K562	blood:
6	chr1:149857765..149858537-chr15:45021454..45022005,2	Hela-S3	cervix:
7	chr15:44953895..44957741-chr15:45015371..45022655,19	K562	blood:
8	chr15:44958326..44960851-chr15:45019076..45021871,2	MCF-7	breast:
9	chr15:45000863..45005844-chr15:45018710..45023352,9	MCF-7	breast:
10	chr15:45007310..45009648-chr15:45019472..45022079,3	MCF-7	breast:
11	chr15:45021620..45024215-chr15:45028618..45030291,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000104133	Chromatin interaction
ENSG00000229474	Chromatin interaction
ENSG00000185880	Chromatin interaction
ENSG00000184260	Chromatin interaction
ENSG00000166710	Chromatin interaction
ENSG00000184678	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11853269	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11856066	0.85[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs16966424	0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17235843	0.83[ASN][1000 genomes]
rs17235857	0.83[ASN][1000 genomes]
rs17518229	0.82[CEU][hapmap]
rs17588988	0.82[CEU][hapmap]
rs17589301	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2123148	0.82[CEU][hapmap]
rs2412919	0.84[EUR][1000 genomes]
rs2412920	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs28812298	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3759880	0.85[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3759882	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3759883	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3759884	0.90[ASN][1000 genomes]
rs4780	0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7164679	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166053	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166101	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167254	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7168673	0.82[CEU][hapmap]
rs7175030	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7182388	0.82[CEU][hapmap]
rs7182487	0.85[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8037029	0.82[CEU][hapmap]
rs8042457	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8043138	0.82[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	esv3386433	chr15:44654644-45037538	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	135 gene(s)	inside rSNPs	diseases
2	esv2758380	chr15:44968868-45422842	Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
3	esv2760029	chr15:44968868-45422842	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
4	nsv832990	chr15:44990765-45162714	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs17588305	TRIM69	cis	Artery Tibial	GTEx
rs17588305	TRIM69	cis	Nerve Tibial	GTEx
rs17588305	TRIM69	cis	Adipose Subcutaneous	GTEx
rs17588305	TRIM69	cis	Esophagus Muscularis	GTEx
rs17588305	TRIM69	cis	Muscle Skeletal	GTEx
rs17588305	TRIM69	cis	Artery Aorta	GTEx
rs17588305	TRIM69	cis	Thyroid	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45020200-45022400	Active TSS	Rectal Smooth Muscle	rectum
2	chr15:45020200-45023000	Active TSS	Brain Anterior Caudate	brain
3	chr15:45020400-45021800	Active TSS	K562	blood
4	chr15:45020400-45022000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:45020400-45022000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr15:45020400-45022000	Active TSS	Breast Myoepithelial Primary Cells	Breast
7	chr15:45020400-45022000	Active TSS	Muscle Satellite Cultured Cells	--
8	chr15:45020400-45022000	Active TSS	HepG2	liver
9	chr15:45020400-45022200	Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr15:45020400-45022400	Active TSS	A549	lung
11	chr15:45020400-45022400	Active TSS	HSMM	muscle
12	chr15:45020400-45022600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:45020400-45022800	Active TSS	Brain Germinal Matrix	brain
14	chr15:45020400-45022800	Active TSS	Pancreatic Islets	Pancreatic Islet
15	chr15:45020400-45023600	Active TSS	GM12878-XiMat	blood
16	chr15:45020600-45021800	Active TSS	iPS-18 Cell Line	embryonic stem cell
17	chr15:45020600-45021800	Active TSS	Adipose Nuclei	Adipose
18	chr15:45020600-45021800	Active TSS	Fetal Lung	lung
19	chr15:45020600-45021800	Active TSS	Osteobl	bone
20	chr15:45020600-45022000	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr15:45020600-45022000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr15:45020600-45022000	Active TSS	Liver	Liver
23	chr15:45020600-45022000	Active TSS	Esophagus	oesophagus
24	chr15:45020600-45022000	Active TSS	Fetal Intestine Large	intestine
25	chr15:45020600-45022000	Active TSS	Pancreas	Pancrea
26	chr15:45020600-45022000	Active TSS	Hela-S3	cervix
27	chr15:45020600-45022000	Active TSS	HSMMtube	muscle
28	chr15:45020600-45022200	Active TSS	H1 Cell Line	embryonic stem cell
29	chr15:45020600-45022200	Active TSS	H9 Cell Line	embryonic stem cell
30	chr15:45020600-45022200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr15:45020600-45022200	Active TSS	iPS-20b Cell Line	embryonic stem cell
32	chr15:45020600-45022200	Active TSS	Brain Substantia Nigra	brain
33	chr15:45020600-45022200	Active TSS	Ovary	ovary
34	chr15:45020600-45022400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:45020600-45022400	Active TSS	HUES48 Cell Line	embryonic stem cell
36	chr15:45020600-45022400	Active TSS	HUES6 Cell Line	embryonic stem cell
37	chr15:45020600-45022400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr15:45020600-45022400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr15:45020600-45022400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr15:45020600-45022400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr15:45020600-45022400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr15:45020600-45022400	Active TSS	Colon Smooth Muscle	Colon
43	chr15:45020600-45022400	Active TSS	Fetal Stomach	stomach
44	chr15:45020600-45022400	Active TSS	Psoas Muscle	Psoas
45	chr15:45020600-45022400	Active TSS	HMEC	breast
46	chr15:45020600-45022600	Active TSS	iPS-15b Cell Line	embryonic stem cell
47	chr15:45020600-45022600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
48	chr15:45020600-45022600	Active TSS	Fetal Heart	heart
49	chr15:45020600-45022600	Active TSS	Fetal Kidney	kidney
50	chr15:45020600-45022600	Active TSS	NH-A	brain

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