Variant report

Variant	rs13065938
Chromosome Location	chr3:159561926-159561927
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159560375..159562588-chr3:159564406..159567889,4	K562	blood:
2	chr3:159561088..159563606-chr3:159564406..159566329,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs12629172	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12631468	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13064339	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];0.81[EUR][1000 genomes]
rs13066040	0.89[MEX][hapmap]
rs13066560	1.00[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13067050	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13072356	0.82[AMR][1000 genomes]
rs13075534	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes]
rs13077427	0.85[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs13078322	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]
rs13080307	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13080768	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13085339	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13088481	0.97[AMR][1000 genomes]
rs13088959	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13100094	0.85[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap]
rs13100614	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes]
rs16830741	0.97[AMR][1000 genomes]
rs16830748	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][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];0.81[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];0.81[EUR][1000 genomes]
rs35035161	0.97[AMR][1000 genomes]
rs35165740	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35527279	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35792854	0.97[AMR][1000 genomes]
rs3892994	0.91[CEU][hapmap];0.97[AMR][1000 genomes]
rs56077320	0.97[AMR][1000 genomes]
rs58755984	0.97[AMR][1000 genomes]
rs61597037	0.97[AMR][1000 genomes]
rs6792870	0.85[CEU][hapmap];0.89[MEX][hapmap]
rs71625413	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[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]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13065938	PUS3	trans	parietal	SCAN

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159556000-159566200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:159556200-159563400	Weak transcription	NHEK	skin
3	chr3:159558000-159562600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:159558000-159568800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:159558000-159570800	Weak transcription	Pancreas	Pancrea
6	chr3:159558000-159575000	Weak transcription	Gastric	stomach
7	chr3:159558200-159562800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:159558200-159562800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:159558200-159562800	Weak transcription	Lung	lung
10	chr3:159558200-159565800	Weak transcription	Spleen	Spleen
11	chr3:159558400-159562600	Weak transcription	Right Ventricle	heart
12	chr3:159558400-159562800	Weak transcription	Left Ventricle	heart
13	chr3:159558400-159562800	Weak transcription	Psoas Muscle	Psoas
14	chr3:159558600-159566000	Weak transcription	Right Atrium	heart
15	chr3:159558800-159570600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr3:159559000-159562400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:159559000-159569400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr3:159559000-159570600	Weak transcription	Fetal Muscle Trunk	muscle
19	chr3:159559400-159562200	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr3:159559600-159563600	Weak transcription	A549	lung
21	chr3:159559800-159564000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr3:159560000-159565200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr3:159560200-159565400	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr3:159560400-159562000	Enhancers	Brain Anterior Caudate	brain
25	chr3:159560400-159562800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:159560400-159564000	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr3:159560400-159569200	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr3:159560600-159568400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:159561000-159563200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr3:159561000-159563800	Enhancers	Placenta	Placenta
31	chr3:159561000-159564000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr3:159561000-159565800	Enhancers	Primary hematopoietic stem cells	blood
33	chr3:159561000-159567400	Enhancers	Brain Substantia Nigra	brain
34	chr3:159561200-159565000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr3:159561400-159563000	Enhancers	Fetal Brain Male	brain
36	chr3:159561600-159562000	Enhancers	Stomach Smooth Muscle	stomach
37	chr3:159561600-159562200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
38	chr3:159561600-159563000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:159561600-159563000	Flanking Active TSS	Brain Hippocampus Middle	brain
40	chr3:159561600-159563000	Bivalent Enhancer	Fetal Lung	lung
41	chr3:159561600-159563000	Enhancers	HUVEC	blood vessel
42	chr3:159561600-159563000	Enhancers	NHLF	lung
43	chr3:159561600-159563000	Enhancers	Osteobl	bone
44	chr3:159561600-159564000	Enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr3:159561600-159564000	Enhancers	Rectal Smooth Muscle	rectum
46	chr3:159561600-159566200	Enhancers	HSMMtube	muscle
47	chr3:159561800-159562000	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr3:159561800-159562000	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
49	chr3:159561800-159562000	Enhancers	NHDF-Ad	bronchial
50	chr3:159561800-159562200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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