Variant report

Variant	rs2859136
Chromosome Location	chr6:36109901-36109902
allele	A/G
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	POLR2A	chr6:36109502-36110000	HepG2	liver:	n/a	n/a
2	POLR2A	chr6:36109780-36110078	HepG2	liver:	n/a	n/a
3	POLR2A	chr6:36109755-36110052	HCT-116	colon:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:36109459..36111400-chr6:36113077..36115666,2	K562	blood:
2	chr6:36108837..36110451-chr6:36310627..36312138,2	K562	blood:
3	chr6:36105269..36110195-chr6:36162724..36166768,9	MCF-7	breast:
4	chr6:36097728..36101919-chr6:36109751..36111970,4	K562	blood:

Variant related genes	Relation type
ENSG00000221743	TF binding region
ENSG00000156711	Chromatin interaction
ENSG00000246982	Chromatin interaction
ENSG00000096070	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10447375	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10447396	0.86[ASW][hapmap];0.94[MEX][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs1059227	0.86[ASW][hapmap];0.92[CEU][hapmap];0.91[GIH][hapmap];0.83[LWK][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10947589	0.85[AMR][1000 genomes]
rs12193895	0.82[AMR][1000 genomes]
rs12199702	0.88[MEX][hapmap];0.82[AMR][1000 genomes]
rs12201042	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12201072	0.82[AMR][1000 genomes]
rs12210904	0.83[AMR][1000 genomes]
rs2007683	0.93[ASW][hapmap];1.00[CEU][hapmap];0.91[GIH][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2859135	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859137	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859141	0.93[ASW][hapmap];0.96[CEU][hapmap];0.91[GIH][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4711433	0.85[AMR][1000 genomes]
rs6940723	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs2859136	MAPK13	cis	Esophagus Mucosa	GTEx
rs2859136	MAPK13	cis	multi-tissue	Pritchard
rs2859136	CLPS	cis	parietal	SCAN
rs2859136	KIF6	cis	cerebellum	SCAN
rs2859136	MAPK13	cis	Skin Sun Exposed Lower leg	GTEx
rs2859136	MAPK13	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36099200-36117400	Weak transcription	Psoas Muscle	Psoas
2	chr6:36099800-36113400	Weak transcription	Right Atrium	heart
3	chr6:36100200-36111000	Weak transcription	Adipose Nuclei	Adipose
4	chr6:36100200-36111000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:36100200-36115000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr6:36100400-36117400	Weak transcription	Fetal Lung	lung
7	chr6:36100400-36118600	Weak transcription	Small Intestine	intestine
8	chr6:36100600-36110000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:36100800-36114600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:36101200-36129400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:36101400-36114600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr6:36102000-36110200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr6:36104200-36110200	Weak transcription	NHEK	skin
14	chr6:36104600-36111200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr6:36104800-36114600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:36105400-36110200	Strong transcription	Primary B cells from peripheral blood	blood
17	chr6:36106400-36110200	Weak transcription	NHLF	lung
18	chr6:36106600-36110200	Strong transcription	Fetal Intestine Large	intestine
19	chr6:36106600-36112400	Strong transcription	Fetal Intestine Small	intestine
20	chr6:36106800-36110400	Genic enhancers	Primary T cells fromperipheralblood	blood
21	chr6:36107200-36111200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:36107400-36112000	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr6:36107600-36110000	Weak transcription	Thymus	Thymus
24	chr6:36107600-36112000	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr6:36107600-36112800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:36107600-36113000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr6:36107600-36114800	Weak transcription	Spleen	Spleen
28	chr6:36107800-36111200	Weak transcription	Gastric	stomach
29	chr6:36107800-36115600	Weak transcription	Brain Angular Gyrus	brain
30	chr6:36108000-36110400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr6:36108000-36111400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:36108200-36110800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr6:36108200-36111000	Weak transcription	Esophagus	oesophagus
34	chr6:36108200-36111200	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:36108200-36111400	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr6:36108200-36114800	Weak transcription	HepG2	liver
37	chr6:36108400-36110200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr6:36108400-36110400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr6:36108400-36111000	Weak transcription	Pancreas	Pancrea
40	chr6:36108400-36111600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:36108400-36112400	Weak transcription	Fetal Heart	heart
42	chr6:36108400-36114000	Enhancers	Primary neutrophils fromperipheralblood	blood
43	chr6:36108400-36114600	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:36108400-36114800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr6:36108400-36115200	Weak transcription	Lung	lung
46	chr6:36108400-36117400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr6:36108400-36117400	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr6:36108600-36110000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr6:36108600-36110800	Weak transcription	Placenta	Placenta
50	chr6:36108600-36111000	Weak transcription	Fetal Muscle Leg	muscle

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