Variant report

Variant	rs6773087
Chromosome Location	chr3:143540273-143540274
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:143534241..143536547-chr3:143539436..143542162,2	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1319101	0.84[AMR][1000 genomes]
rs1823220	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1900644	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2361202	0.84[AMR][1000 genomes]
rs4593022	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4839612	1.00[CEU][hapmap]
rs6801948	0.91[AMR][1000 genomes]
rs6804065	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9822158	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9844917	1.00[EUR][1000 genomes]
rs9847107	1.00[CEU][hapmap];0.92[EUR][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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv3418674	chr3:143457005-143558357	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1009935	chr3:143497700-143610852	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1001076	chr3:143513526-143547076	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv536747	chr3:143513526-143547076	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6773087	C14orf143	trans	lymphoblastoid	RTeQTL

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143514200-143544200	Weak transcription	Primary T cells from cord blood	blood
2	chr3:143529600-143540600	Weak transcription	Brain Angular Gyrus	brain
3	chr3:143529600-143543800	Weak transcription	Stomach Mucosa	stomach
4	chr3:143530600-143540600	Weak transcription	Placenta	Placenta
5	chr3:143530800-143540800	Weak transcription	Fetal Stomach	stomach
6	chr3:143531000-143543200	Weak transcription	NHDF-Ad	bronchial
7	chr3:143531800-143543200	Weak transcription	Aorta	Aorta
8	chr3:143533600-143543200	Weak transcription	Fetal Lung	lung
9	chr3:143533800-143540600	Weak transcription	Primary B cells from cord blood	blood
10	chr3:143533800-143543200	Weak transcription	Right Atrium	heart
11	chr3:143534000-143540600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr3:143534400-143540600	Weak transcription	Fetal Thymus	thymus
13	chr3:143536000-143545200	Weak transcription	Gastric	stomach
14	chr3:143538000-143542200	Enhancers	Brain Substantia Nigra	brain
15	chr3:143538600-143542000	Enhancers	Brain Cingulate Gyrus	brain
16	chr3:143538800-143541800	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr3:143539000-143542200	Enhancers	Brain Hippocampus Middle	brain
18	chr3:143539200-143544600	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr3:143539400-143541400	Enhancers	Spleen	Spleen
20	chr3:143539400-143541800	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr3:143539400-143541800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr3:143539400-143545000	Weak transcription	Liver	Liver
23	chr3:143539600-143540600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr3:143539600-143540600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr3:143539600-143541200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:143539600-143541400	Enhancers	Primary hematopoietic stem cells	blood
27	chr3:143539600-143541800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr3:143539600-143546600	Weak transcription	Esophagus	oesophagus
29	chr3:143539600-143550000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr3:143539800-143540800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr3:143539800-143540800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr3:143539800-143541000	Enhancers	Fetal Muscle Trunk	muscle
33	chr3:143539800-143541200	Weak transcription	Psoas Muscle	Psoas
34	chr3:143539800-143541400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
35	chr3:143539800-143541400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
36	chr3:143539800-143541600	Enhancers	Primary T cells fromperipheralblood	blood
37	chr3:143539800-143541600	Enhancers	GM12878-XiMat	blood
38	chr3:143539800-143558200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr3:143540000-143540400	Weak transcription	Adipose Nuclei	Adipose
40	chr3:143540000-143540600	Weak transcription	Fetal Muscle Leg	muscle
41	chr3:143540000-143541000	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr3:143540000-143541800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr3:143540000-143543000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr3:143540000-143549600	Weak transcription	HSMM	muscle
45	chr3:143540200-143540600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr3:143540200-143540600	Weak transcription	Lung	lung
47	chr3:143540200-143541000	Weak transcription	HSMMtube	muscle
48	chr3:143540200-143541200	Weak transcription	Fetal Kidney	kidney
49	chr3:143540200-143542200	Enhancers	Brain Anterior Caudate	brain

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