Variant report

Variant	rs13078322
Chromosome Location	chr3:159557055-159557056
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12629172	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12631468	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13064339	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13065938	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13065987	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13066040	0.89[MEX][hapmap]
rs13066560	1.00[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13067050	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13072356	0.82[AMR][1000 genomes]
rs13075534	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13077427	0.85[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs13080307	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13080768	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13085339	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13088481	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13088959	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13100094	0.85[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs13100614	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16830741	0.97[AMR][1000 genomes]
rs16830748	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16830780	0.85[CEU][hapmap]
rs2076889	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2126142	0.85[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs2366405	0.85[CEU][hapmap]
rs34682429	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35035161	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35165740	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35527279	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35792854	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3892994	0.91[CEU][hapmap];0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56077320	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs58755984	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61597037	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6792870	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs71625413	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7631400	0.85[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs9860588	0.85[CEU][hapmap]
rs9880487	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs9884085	0.85[CEU][hapmap];0.89[MEX][hapmap]

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	esv3425676	chr3:159556640-159557142	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13078322	PUS3	trans	parietal	SCAN

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159547000-159557400	Weak transcription	Fetal Kidney	kidney
2	chr3:159550200-159557600	Weak transcription	Primary B cells from cord blood	blood
3	chr3:159550200-159557600	Weak transcription	Spleen	Spleen
4	chr3:159551400-159561800	Weak transcription	Aorta	Aorta
5	chr3:159551800-159557600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:159551800-159557600	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr3:159552800-159557400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:159552800-159557800	Enhancers	HUVEC	blood vessel
9	chr3:159553200-159557400	Enhancers	Rectal Smooth Muscle	rectum
10	chr3:159554000-159557200	Enhancers	Brain Angular Gyrus	brain
11	chr3:159554000-159557400	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr3:159554000-159557400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr3:159554000-159557400	Enhancers	Brain Hippocampus Middle	brain
14	chr3:159554000-159557400	Enhancers	Brain Substantia Nigra	brain
15	chr3:159554600-159557200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr3:159555000-159557800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:159555000-159558000	Weak transcription	A549	lung
18	chr3:159555200-159561600	Weak transcription	NHLF	lung
19	chr3:159555400-159557400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:159555400-159557600	Weak transcription	Placenta	Placenta
21	chr3:159555400-159557800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:159555600-159557200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr3:159555600-159561800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr3:159555800-159557200	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:159555800-159557200	Weak transcription	NH-A	brain
26	chr3:159555800-159557400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr3:159555800-159557400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr3:159555800-159557400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:159555800-159557400	Weak transcription	Adipose Nuclei	Adipose
30	chr3:159555800-159557600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr3:159555800-159557600	Weak transcription	Lung	lung
32	chr3:159555800-159557800	Weak transcription	Fetal Heart	heart
33	chr3:159555800-159557800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr3:159556000-159557200	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr3:159556000-159557400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr3:159556000-159557400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:159556000-159557400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr3:159556000-159557400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:159556000-159557400	Weak transcription	Left Ventricle	heart
40	chr3:159556000-159557400	Weak transcription	Right Atrium	heart
41	chr3:159556000-159557400	Weak transcription	Right Ventricle	heart
42	chr3:159556000-159557400	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr3:159556000-159557400	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr3:159556000-159557400	Weak transcription	Stomach Smooth Muscle	stomach
45	chr3:159556000-159557400	Weak transcription	HSMM	muscle
46	chr3:159556000-159557600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr3:159556000-159557600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr3:159556000-159557600	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr3:159556000-159557600	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr3:159556000-159557600	Weak transcription	Psoas Muscle	Psoas

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