Variant report

Variant	rs12198845
Chromosome Location	chr6:46099045-46099046
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10807333	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10948278	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1117991	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1117992	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11752816	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11759657	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12190045	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12197121	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12199777	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12201262	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12203117	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12209129	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1338465	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1416165	0.90[EUR][1000 genomes]
rs1578004	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16874220	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16874246	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3734207	0.91[EUR][1000 genomes]
rs3777632	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3806993	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3822892	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4434468	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57350848	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72858662	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72858666	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72858667	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72858672	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7453667	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9369596	0.91[EUR][1000 genomes]
rs9381422	0.91[EUR][1000 genomes]
rs9381423	0.91[EUR][1000 genomes]
rs9395149	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9395157	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][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	nsv1022912	chr6:46093409-46116449	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12198845	ENPP4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:46098600-46101200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:46098600-46105200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:46098800-46101000	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr6:46098800-46101000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:46098800-46101200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:46098800-46101200	Weak transcription	Colon Smooth Muscle	Colon
7	chr6:46098800-46101200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:46098800-46101200	Weak transcription	Fetal Intestine Small	intestine
9	chr6:46098800-46101200	Weak transcription	Right Atrium	heart
10	chr6:46098800-46101200	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr6:46098800-46101200	Weak transcription	Stomach Smooth Muscle	stomach
12	chr6:46098800-46101200	Weak transcription	GM12878-XiMat	blood
13	chr6:46098800-46101400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:46098800-46101400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr6:46098800-46101400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:46098800-46101400	Weak transcription	Fetal Intestine Large	intestine
17	chr6:46098800-46101400	Weak transcription	Small Intestine	intestine
18	chr6:46098800-46102000	Weak transcription	Primary B cells from peripheral blood	blood
19	chr6:46098800-46102000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:46098800-46103000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:46098800-46104200	Weak transcription	Brain Anterior Caudate	brain
22	chr6:46098800-46104200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:46098800-46104200	Weak transcription	Brain Substantia Nigra	brain
24	chr6:46098800-46104200	Weak transcription	Fetal Heart	heart
25	chr6:46098800-46104200	Weak transcription	Psoas Muscle	Psoas
26	chr6:46098800-46104200	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr6:46098800-46104400	Weak transcription	HSMMtube	muscle
28	chr6:46098800-46104800	Weak transcription	Brain Angular Gyrus	brain
29	chr6:46098800-46105200	Weak transcription	Aorta	Aorta
30	chr6:46098800-46105200	Weak transcription	Thymus	Thymus
31	chr6:46098800-46106000	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr6:46098800-46106200	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr6:46098800-46107600	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr6:46098800-46109000	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr6:46098800-46109200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr6:46098800-46109600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:46098800-46109600	Weak transcription	Fetal Thymus	thymus
38	chr6:46098800-46110200	Weak transcription	Primary T cells from cord blood	blood
39	chr6:46098800-46110200	Weak transcription	Primary hematopoietic stem cells	blood
40	chr6:46098800-46110400	Weak transcription	Primary B cells from cord blood	blood
41	chr6:46098800-46110400	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr6:46098800-46110600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr6:46098800-46110600	Weak transcription	Adipose Nuclei	Adipose
44	chr6:46098800-46110600	Weak transcription	Left Ventricle	heart
45	chr6:46098800-46110600	Weak transcription	Dnd41	blood
46	chr6:46098800-46110800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:46098800-46111600	Weak transcription	Right Ventricle	heart
48	chr6:46098800-46112400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr6:46098800-46112800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:46098800-46112800	Weak transcription	Rectal Smooth Muscle	rectum

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