Variant report

Variant	rs6034536
Chromosome Location	chr20:16556644-16556645
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr20:16555163-16556676	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16554484..16557263-chr20:16559352..16563570,6	K562	blood:
2	chr20:16549901..16551714-chr20:16554248..16557125,2	MCF-7	breast:

Variant related genes	Relation type
KIF16B	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2235968	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4297956	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4588261	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4813227	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6034537	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6044117	0.82[EUR][1000 genomes]
rs6044120	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6044140	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6044142	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6105630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6135804	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6034536	C20orf23	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16553000-16557200	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr20:16555400-16557000	Active TSS	K562	blood
3	chr20:16555600-16557000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
4	chr20:16556000-16556800	Flanking Active TSS	HepG2	liver
5	chr20:16556000-16559600	Weak transcription	Lung	lung
6	chr20:16556000-16560200	Weak transcription	Small Intestine	intestine
7	chr20:16556200-16556800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr20:16556200-16556800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
9	chr20:16556200-16557000	Enhancers	Fetal Muscle Leg	muscle
10	chr20:16556200-16559600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr20:16556200-16559800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr20:16556200-16560000	Weak transcription	Stomach Mucosa	stomach
13	chr20:16556200-16560400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr20:16556400-16556800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr20:16556400-16556800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr20:16556400-16556800	Enhancers	Primary T cells from cord blood	blood
17	chr20:16556400-16556800	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr20:16556400-16556800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr20:16556400-16556800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr20:16556400-16556800	Enhancers	Duodenum Mucosa	Duodenum
21	chr20:16556400-16556800	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr20:16556400-16556800	Enhancers	Fetal Brain Female	brain
23	chr20:16556400-16556800	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr20:16556400-16557000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr20:16556400-16557000	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr20:16556400-16557000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr20:16556400-16557000	Enhancers	Fetal Muscle Trunk	muscle
28	chr20:16556400-16557000	Enhancers	Placenta Amnion	Placenta Amnion
29	chr20:16556400-16557000	Enhancers	A549	lung
30	chr20:16556400-16557200	Enhancers	H1 Cell Line	embryonic stem cell
31	chr20:16556400-16557200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr20:16556400-16557200	Enhancers	Primary T cells fromperipheralblood	blood
33	chr20:16556400-16559400	Weak transcription	Pancreas	Pancrea
34	chr20:16556400-16559600	Weak transcription	Esophagus	oesophagus
35	chr20:16556400-16559600	Weak transcription	Fetal Intestine Small	intestine
36	chr20:16556400-16559600	Weak transcription	Gastric	stomach
37	chr20:16556400-16559600	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr20:16556400-16559600	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr20:16556400-16559600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr20:16556400-16560000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr20:16556400-16560000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr20:16556400-16560000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr20:16556400-16560000	Weak transcription	Fetal Kidney	kidney
44	chr20:16556400-16560000	Weak transcription	HMEC	breast
45	chr20:16556400-16560200	Weak transcription	HSMMtube	muscle
46	chr20:16556400-16560200	Weak transcription	NH-A	brain
47	chr20:16556400-16560800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr20:16556400-16560800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr20:16556400-16561000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr20:16556400-16562400	Weak transcription	Left Ventricle	heart

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