Variant report

Variant	rs36098393
Chromosome Location	chr6:36883748-36883749
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36645356..36648241-chr6:36882559..36884793,2	MCF-7	breast:
2	chr6:36880047..36886049-chr6:36952384..36956049,12	MCF-7	breast:
3	chr6:36882930..36885800-chr6:37137615..37140265,2	MCF-7	breast:
4	chr6:36882284..36884713-chr6:36895663..36897480,2	MCF-7	breast:
5	chr6:36841055..36843830-chr6:36880674..36884413,4	MCF-7	breast:
6	chr6:36883006..36885868-chr6:36886588..36888530,2	K562	blood:
7	chr6:36872618..36878206-chr6:36882033..36886554,6	K562	blood:

Variant related genes	Relation type
ENSG00000137193	Chromatin interaction
ENSG00000137409	Chromatin interaction
ENSG00000124762	Chromatin interaction
ENSG00000137168	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11542163	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751310	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751956	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753183	0.92[EUR][1000 genomes]
rs11753835	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11757851	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11759158	0.92[EUR][1000 genomes]
rs11759163	0.92[EUR][1000 genomes]
rs12660916	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12660989	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13191679	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13192293	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13200132	1.00[ASN][1000 genomes]
rs13205108	0.92[EUR][1000 genomes]
rs13205292	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13206310	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13207209	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13210299	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17552005	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34405617	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34433592	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34510528	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34597881	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34869908	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34913693	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35819257	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71569352	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71569356	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470425	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][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	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs36098393	C6orf89	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36854200-36887400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:36854400-36893000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:36854800-36884600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:36866200-36896400	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr6:36867000-36897000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:36870800-36889400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr6:36871000-36888400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:36876000-36885000	Strong transcription	Fetal Stomach	stomach
9	chr6:36876200-36885800	Weak transcription	Psoas Muscle	Psoas
10	chr6:36876800-36884200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:36876800-36885000	Weak transcription	Ovary	ovary
12	chr6:36876800-36885200	Weak transcription	Fetal Heart	heart
13	chr6:36877000-36884400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr6:36877800-36896000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:36879400-36884400	Strong transcription	Stomach Smooth Muscle	stomach
16	chr6:36879400-36894000	Strong transcription	Fetal Brain Female	brain
17	chr6:36879600-36894000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:36879600-36895400	Strong transcription	Brain Germinal Matrix	brain
19	chr6:36879800-36884400	Strong transcription	Placenta	Placenta
20	chr6:36879800-36885000	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr6:36879800-36885000	Strong transcription	Left Ventricle	heart
22	chr6:36879800-36885200	Strong transcription	Right Ventricle	heart
23	chr6:36879800-36885400	Strong transcription	Skeletal Muscle Female	skeletal muscle
24	chr6:36880000-36892000	Strong transcription	Rectal Mucosa Donor 29	rectum
25	chr6:36880200-36884800	Strong transcription	Duodenum Smooth Muscle	Duodenum
26	chr6:36880200-36887800	Strong transcription	Adipose Nuclei	Adipose
27	chr6:36880200-36893800	Strong transcription	K562	blood
28	chr6:36880400-36884600	Strong transcription	Aorta	Aorta
29	chr6:36880400-36885400	Strong transcription	Lung	lung
30	chr6:36880400-36888000	Strong transcription	Brain Angular Gyrus	brain
31	chr6:36880600-36884600	Strong transcription	Rectal Smooth Muscle	rectum
32	chr6:36880600-36893600	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr6:36880600-36900000	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr6:36880800-36889800	Strong transcription	Primary B cells from peripheral blood	blood
35	chr6:36881000-36883800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr6:36881000-36892000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr6:36881000-36894800	Weak transcription	Fetal Brain Male	brain
38	chr6:36881200-36883800	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr6:36881200-36885000	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr6:36881200-36886400	Strong transcription	Brain Inferior Temporal Lobe	brain
41	chr6:36881200-36887200	Genic enhancers	Fetal Thymus	thymus
42	chr6:36881200-36889600	Strong transcription	Brain Hippocampus Middle	brain
43	chr6:36881400-36884200	Weak transcription	Colonic Mucosa	Colon
44	chr6:36881400-36885800	Weak transcription	Esophagus	oesophagus
45	chr6:36881400-36893000	Strong transcription	Spleen	Spleen
46	chr6:36881400-36893600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:36881400-36893800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:36881400-36896200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:36881600-36889600	Strong transcription	Brain Cingulate Gyrus	brain
50	chr6:36881600-36891200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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