Variant report

Variant	rs11081746
Chromosome Location	chr18:29704652-29704653
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:29672647..29674860-chr18:29703384..29706167,2	MCF-7	breast:
2	chr18:29670755..29674701-chr18:29702072..29706406,4	K562	blood:

Variant related genes	Relation type
ENSG00000265008	Chromatin interaction
ENSG00000134758	Chromatin interaction
ENSG00000238982	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10048285	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10048287	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1054667	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10853418	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11081747	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11081750	0.84[ASN][1000 genomes]
rs11663563	0.85[CEU][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12454857	0.84[ASN][1000 genomes]
rs12455044	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12458548	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12458837	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12458851	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12604223	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12605137	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs1808891	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2010813	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2018380	0.82[CEU][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2048245	0.82[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3760568	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3980846	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3980848	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4799326	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs4799629	0.92[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4799632	0.85[CEU][hapmap]
rs4799633	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62093949	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62093950	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62095578	0.84[ASN][1000 genomes]
rs62095579	0.84[ASN][1000 genomes]
rs62095587	0.82[ASN][1000 genomes]
rs67929870	0.84[ASN][1000 genomes]
rs7232533	0.82[ASN][1000 genomes]
rs7238559	0.82[CEU][hapmap]
rs72639475	0.84[ASN][1000 genomes]
rs9676102	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs993897	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9944759	0.84[ASN][1000 genomes]
rs9944778	0.84[ASN][1000 genomes]
rs9952622	0.84[ASN][1000 genomes]
rs9955753	0.81[ASN][1000 genomes]
rs9964960	0.84[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11081746	RNF138	cis	Esophagus Mucosa	GTEx
rs11081746	RNF138	cis	multi-tissue	Pritchard
rs11081746	RNF138	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29673400-29713800	Weak transcription	Spleen	Spleen
2	chr18:29673800-29714000	Weak transcription	Esophagus	oesophagus
3	chr18:29673800-29714200	Weak transcription	Ovary	ovary
4	chr18:29673800-29715200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr18:29673800-29715200	Weak transcription	Lung	lung
6	chr18:29673800-29715800	Weak transcription	Colonic Mucosa	Colon
7	chr18:29673800-29717000	Weak transcription	HSMMtube	muscle
8	chr18:29674000-29712000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr18:29674600-29705600	Weak transcription	NHLF	lung
10	chr18:29675000-29717200	Weak transcription	NH-A	brain
11	chr18:29676400-29707000	Weak transcription	Brain Angular Gyrus	brain
12	chr18:29676600-29704800	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr18:29676800-29705000	Weak transcription	Brain Hippocampus Middle	brain
14	chr18:29676800-29717200	Weak transcription	Brain Germinal Matrix	brain
15	chr18:29677000-29713800	Weak transcription	Small Intestine	intestine
16	chr18:29677000-29715600	Weak transcription	Fetal Heart	heart
17	chr18:29677000-29717000	Weak transcription	Aorta	Aorta
18	chr18:29687200-29713600	Strong transcription	Dnd41	blood
19	chr18:29688200-29706400	Strong transcription	Fetal Thymus	thymus
20	chr18:29688200-29712400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr18:29689400-29713600	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr18:29689800-29705000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr18:29689800-29709400	Weak transcription	Gastric	stomach
24	chr18:29689800-29713200	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr18:29690200-29706600	Weak transcription	Right Ventricle	heart
26	chr18:29690400-29704800	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr18:29690800-29710400	Weak transcription	Colon Smooth Muscle	Colon
28	chr18:29691000-29709400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
29	chr18:29691000-29712400	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr18:29691000-29712600	Strong transcription	Primary B cells from peripheral blood	blood
31	chr18:29691200-29707200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr18:29691200-29713600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr18:29691400-29715000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr18:29691600-29713000	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr18:29691800-29712400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr18:29693200-29710400	Weak transcription	Brain Cingulate Gyrus	brain
37	chr18:29693400-29710400	Weak transcription	Fetal Brain Male	brain
38	chr18:29693600-29706400	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr18:29694000-29706200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr18:29695000-29704800	Weak transcription	Fetal Kidney	kidney
41	chr18:29695200-29709000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr18:29695200-29713200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr18:29695800-29715200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr18:29695800-29717600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr18:29696000-29708800	Weak transcription	HepG2	liver
46	chr18:29696200-29705400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr18:29696200-29705600	Weak transcription	Thymus	Thymus
48	chr18:29696800-29710200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr18:29696800-29712000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr18:29697000-29714200	Weak transcription	Sigmoid Colon	Sigmoid Colon

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