Variant report

Variant	rs13191679
Chromosome Location	chr6:36896895-36896896
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36882284..36884713-chr6:36895663..36897480,2	MCF-7	breast:
2	chr6:36877418..36880214-chr6:36894760..36897203,2	K562	blood:
3	chr6:36895700..36898695-chr6:36952994..36954774,2	MCF-7	breast:
4	chr6:36876919..36878918-chr6:36895703..36897672,2	K562	blood:
5	chr6:36884977..36888283-chr6:36895013..36898238,3	K562	blood:
6	chr6:36896194..36898898-chr6:36953631..36956084,2	K562	blood:

Variant related genes	Relation type
ENSG00000137409	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	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751310	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751956	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753183	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11753835	0.92[EUR][1000 genomes]
rs11757851	0.94[EUR][1000 genomes]
rs11759158	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11759163	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12660916	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12660989	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13192293	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13200132	1.00[ASN][1000 genomes]
rs13205108	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13205292	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13206310	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13207209	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13210299	1.00[ASN][1000 genomes]
rs17552005	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34405617	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34433592	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34510528	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34597881	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34869908	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34913693	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35819257	0.97[EUR][1000 genomes]
rs36098393	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71569352	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71569356	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470425	0.84[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
rs13191679	C6orf89	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36867000-36897000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:36880600-36900000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:36884800-36901200	Weak transcription	HMEC	breast
4	chr6:36889400-36897400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:36891600-36901800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:36891800-36897800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr6:36892200-36900600	Weak transcription	HUVEC	blood vessel
8	chr6:36892600-36900800	Weak transcription	NHEK	skin
9	chr6:36892800-36897400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:36892800-36915600	Weak transcription	Pancreas	Pancrea
11	chr6:36893200-36898000	Weak transcription	Esophagus	oesophagus
12	chr6:36893200-36900600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:36893400-36897800	Weak transcription	Brain Angular Gyrus	brain
14	chr6:36893600-36897600	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr6:36893600-36906600	Weak transcription	Thymus	Thymus
16	chr6:36893800-36897200	Weak transcription	Primary B cells from cord blood	blood
17	chr6:36893800-36897400	Weak transcription	K562	blood
18	chr6:36893800-36897600	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr6:36893800-36897600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:36893800-36898000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:36893800-36898400	Weak transcription	Liver	Liver
22	chr6:36893800-36898600	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr6:36893800-36903800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:36894000-36897400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:36894000-36897400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr6:36894000-36898400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr6:36894000-36898600	Weak transcription	Fetal Brain Female	brain
28	chr6:36894000-36901200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:36894200-36897400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:36894400-36898800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:36894400-36899200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:36894600-36897600	Enhancers	Fetal Lung	lung
33	chr6:36894600-36898200	Enhancers	Adipose Nuclei	Adipose
34	chr6:36894600-36898200	Enhancers	HSMM	muscle
35	chr6:36894600-36898200	Enhancers	NHDF-Ad	bronchial
36	chr6:36894600-36898800	Enhancers	Muscle Satellite Cultured Cells	--
37	chr6:36894600-36898800	Enhancers	Ovary	ovary
38	chr6:36894800-36898600	Enhancers	Fetal Muscle Leg	muscle
39	chr6:36894800-36901000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:36895000-36897000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
41	chr6:36895000-36897800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:36895000-36898000	Enhancers	Duodenum Smooth Muscle	Duodenum
43	chr6:36895000-36898800	Enhancers	Fetal Heart	heart
44	chr6:36895400-36897200	Enhancers	Psoas Muscle	Psoas
45	chr6:36895400-36897400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr6:36895400-36897400	Weak transcription	Fetal Kidney	kidney
47	chr6:36895400-36898600	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr6:36895400-36899600	Weak transcription	Brain Germinal Matrix	brain
49	chr6:36895600-36897200	Enhancers	H1 Cell Line	embryonic stem cell
50	chr6:36895600-36897200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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