Variant report

Variant	rs55864834
Chromosome Location	chr6:34312448-34312449
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:34311894..34313491-chr6:34319028..34320786,2	K562	blood:
2	chr6:34309301..34312552-chr6:34312659..34315940,4	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10484267	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10484268	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1057691	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1060308	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10648	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1127084	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1265	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12654	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13466	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16883137	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16883475	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16883896	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16888452	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17628798	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17628946	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17629180	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17629270	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17696583	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17696774	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17696829	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1994923	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs206922	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3798554	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3798557	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41269032	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41269034	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs41269036	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs41269038	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4713771	0.85[EUR][1000 genomes]
rs55674397	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55684754	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55694290	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55763242	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55779010	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55798596	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55812200	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55833185	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55863933	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56033036	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56039915	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56107559	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56188036	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56274913	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56309550	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56323997	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56330729	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs59832183	0.90[AMR][1000 genomes]
rs62399870	0.83[EUR][1000 genomes]
rs6911272	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7738665	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7741127	0.82[AMR][1000 genomes]
rs7760373	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7770443	0.82[EUR][1000 genomes]
rs875274	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9368811	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1798756	chr6:34203406-34319041	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	esv1798835	chr6:34204183-34319041	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv1792088	chr6:34204285-34318837	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	esv1793127	chr6:34204285-34319041	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
5	esv1797588	chr6:34310476-34319041	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55864834	NUDT3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34261800-34330800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:34285200-34330600	Weak transcription	Thymus	Thymus
3	chr6:34285800-34326600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr6:34289000-34325200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:34297400-34312800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:34298600-34326400	Weak transcription	A549	lung
7	chr6:34301600-34318000	Weak transcription	Fetal Brain Female	brain
8	chr6:34303000-34312800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:34306000-34313800	Weak transcription	NHEK	skin
10	chr6:34306000-34327800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:34306000-34328800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr6:34307000-34320000	Weak transcription	Ovary	ovary
13	chr6:34307400-34314200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr6:34308800-34313600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr6:34308800-34330800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:34309200-34315800	Weak transcription	Placenta	Placenta
17	chr6:34309200-34318200	Weak transcription	Fetal Lung	lung
18	chr6:34309400-34317200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr6:34309400-34317800	Weak transcription	Brain Germinal Matrix	brain
20	chr6:34309600-34314800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:34309600-34317200	Weak transcription	NHDF-Ad	bronchial
22	chr6:34309600-34319800	Weak transcription	Small Intestine	intestine
23	chr6:34309600-34329200	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr6:34309800-34313400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:34309800-34313600	Weak transcription	Primary B cells from cord blood	blood
26	chr6:34309800-34314000	Weak transcription	Fetal Intestine Large	intestine
27	chr6:34309800-34315000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr6:34309800-34316800	Weak transcription	Osteobl	bone
29	chr6:34309800-34317000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:34309800-34317000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:34309800-34317200	Weak transcription	HSMM	muscle
32	chr6:34309800-34318000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr6:34309800-34318000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr6:34309800-34318000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr6:34309800-34318000	Weak transcription	Fetal Intestine Small	intestine
36	chr6:34309800-34318600	Weak transcription	HMEC	breast
37	chr6:34309800-34320000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr6:34309800-34320000	Weak transcription	Pancreas	Pancrea
39	chr6:34309800-34320200	Weak transcription	HepG2	liver
40	chr6:34309800-34321400	Weak transcription	Lung	lung
41	chr6:34309800-34327000	Weak transcription	Fetal Muscle Trunk	muscle
42	chr6:34309800-34329800	Weak transcription	Fetal Thymus	thymus
43	chr6:34309800-34330800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr6:34309800-34337600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr6:34309800-34347200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr6:34310000-34317000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr6:34310000-34318000	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr6:34310000-34320200	Weak transcription	Fetal Stomach	stomach
49	chr6:34310000-34330600	Weak transcription	Dnd41	blood
50	chr6:34310200-34314000	Weak transcription	Primary hematopoietic stem cells	blood

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