Variant report

Variant	rs62305336
Chromosome Location	chr4:84490190-84490191
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	chr4:84471821..84473601-chr4:84489312..84491517,2	MCF-7	breast:
2	chr16:67570341..67570842-chr4:84490169..84490669,2	NB4	blood:

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10002139	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10009351	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10012782	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11721920	0.94[ASN][1000 genomes]
rs11722160	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11723311	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11730975	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11731267	0.92[ASN][1000 genomes]
rs11731336	0.92[ASN][1000 genomes]
rs11733281	0.94[ASN][1000 genomes]
rs11734158	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11736724	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11737424	0.94[ASN][1000 genomes]
rs12331130	0.94[ASN][1000 genomes]
rs12331142	0.94[ASN][1000 genomes]
rs12331198	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12331205	0.94[ASN][1000 genomes]
rs12331922	0.94[ASN][1000 genomes]
rs17006888	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17353060	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17355300	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17355321	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1965464	0.93[ASN][1000 genomes]
rs28463240	0.94[ASN][1000 genomes]
rs28482178	0.94[ASN][1000 genomes]
rs28504032	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28542730	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28587748	0.94[ASN][1000 genomes]
rs28615868	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28710332	0.94[ASN][1000 genomes]
rs35434386	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4693092	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4693093	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55724846	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55839835	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55851819	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56003368	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56191639	0.84[EUR][1000 genomes]
rs56208893	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56394927	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62303966	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62303968	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62305330	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62305331	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62305332	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62305333	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62305334	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62305335	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62305339	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62305340	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62305342	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62305343	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6812240	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6812267	0.94[ASN][1000 genomes]
rs6835060	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6835481	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72654969	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72654977	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72654978	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9307826	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829994	chr4:84366299-84558316	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv879512	chr4:84374692-85090749	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv1010009	chr4:84469896-84882528	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv964299	chr4:84490085-84499608	Enhancers Weak transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62305336	MAG1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:84481200-84503200	Weak transcription	Colon Smooth Muscle	Colon
2	chr4:84482800-84490400	Weak transcription	Psoas Muscle	Psoas
3	chr4:84482800-84503400	Weak transcription	Ovary	ovary
4	chr4:84483000-84490600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr4:84483200-84490600	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr4:84485800-84491000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:84486000-84513000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:84488200-84491400	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr4:84488200-84491600	Enhancers	A549	lung
10	chr4:84488600-84516800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr4:84489400-84490200	Enhancers	Left Ventricle	heart
12	chr4:84489400-84491200	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr4:84489400-84503400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr4:84489800-84490200	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr4:84489800-84491200	Enhancers	Adipose Nuclei	Adipose
16	chr4:84489800-84492200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:84489800-84499600	Weak transcription	Fetal Lung	lung
18	chr4:84490000-84490200	Weak transcription	Fetal Heart	heart

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