Variant report

Variant	rs11753835
Chromosome Location	chr6:36901339-36901340
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:36900982..36902685-chr6:36952294..36954559,3	MCF-7	breast:
2	chr6:36890243..36895519-chr6:36897368..36902270,7	K562	blood:

Variant related genes	Relation type
ENSG00000137409	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11542163	0.91[EUR][1000 genomes]
rs11751310	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11751956	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11753183	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757851	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759158	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759163	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12660916	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12660989	0.86[AMR][1000 genomes]
rs13191679	0.92[EUR][1000 genomes]
rs13192293	0.91[EUR][1000 genomes]
rs13205108	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13205292	0.86[AMR][1000 genomes]
rs13206310	0.95[AMR][1000 genomes]
rs13207209	0.95[AMR][1000 genomes]
rs13210299	0.82[AMR][1000 genomes]
rs17552005	0.95[AMR][1000 genomes]
rs34405617	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34510528	0.86[AMR][1000 genomes]
rs34597881	0.95[AMR][1000 genomes]
rs34869908	0.95[EUR][1000 genomes]
rs34913693	0.86[AMR][1000 genomes]
rs35819257	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36098393	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71569352	0.86[AMR][1000 genomes]
rs71569356	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9470425	0.91[AMR][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
rs11753835	C6orf89	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36891600-36901800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:36892800-36915600	Weak transcription	Pancreas	Pancrea
3	chr6:36893600-36906600	Weak transcription	Thymus	Thymus
4	chr6:36893800-36903800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:36896200-36914200	Weak transcription	Primary T cells from cord blood	blood
6	chr6:36896200-36915400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:36896400-36914200	Weak transcription	Brain Substantia Nigra	brain
8	chr6:36896600-36901400	Weak transcription	Fetal Thymus	thymus
9	chr6:36897000-36903600	Weak transcription	Fetal Stomach	stomach
10	chr6:36897200-36907200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:36898200-36901400	Weak transcription	NH-A	brain
12	chr6:36898200-36902200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:36898600-36922200	Weak transcription	Right Atrium	heart
14	chr6:36898800-36906200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:36898800-36906400	Weak transcription	Left Ventricle	heart
16	chr6:36899600-36902000	Enhancers	NHDF-Ad	bronchial
17	chr6:36900600-36901400	Enhancers	HUVEC	blood vessel
18	chr6:36900600-36901600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:36900600-36901800	Enhancers	NHLF	lung
20	chr6:36900600-36902000	Enhancers	Muscle Satellite Cultured Cells	--
21	chr6:36900600-36902000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:36900600-36902200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:36900800-36901600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:36900800-36901800	Enhancers	NHEK	skin
25	chr6:36900800-36901800	Enhancers	Osteobl	bone
26	chr6:36901000-36901600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:36901000-36901600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:36901000-36902800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr6:36901200-36901400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:36901200-36901600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:36901200-36901600	Flanking Active TSS	Hela-S3	cervix
32	chr6:36901200-36901600	Enhancers	HMEC	breast

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