Variant report

Variant	rs4243834
Chromosome Location	chr3:17882668-17882669
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:17871984..17874531-chr3:17881448..17883505,2	K562	blood:
2	chr3:17871984..17873814-chr3:17882005..17884877,2	K562	blood:
3	chr3:17586014..17586766-chr3:17882448..17883200,2	MCF-7	breast:
4	chr3:17463498..17465841-chr3:17880192..17882882,2	MCF-7	breast:
5	chr3:17671191..17673216-chr3:17880235..17883064,2	K562	blood:
6	chr3:17472134..17473149-chr3:17882441..17883393,5	K562	blood:
7	chr3:17685895..17687359-chr3:17882432..17883403,5	MCF-7	breast:
8	chr3:17734868..17735782-chr3:17882598..17883359,3	MCF-7	breast:
9	chr3:17515055..17515929-chr3:17882561..17883391,3	MCF-7	breast:
10	chr3:17881267..17883846-chr3:17961295..17962825,2	K562	blood:
11	chr3:17300133..17300831-chr3:17882016..17882990,2	MCF-7	breast:
12	chr3:17472139..17473280-chr3:17881966..17883098,4	MCF-7	breast:
13	chr3:17820757..17821702-chr3:17882495..17883376,2	MCF-7	breast:
14	chr3:17472087..17473109-chr3:17882519..17883281,4	MCF-7	breast:
15	chr3:17872020..17874995-chr3:17881908..17884294,2	MCF-7	breast:
16	chr3:17454330..17455065-chr3:17882486..17883391,2	K562	blood:
17	chr3:17686325..17687848-chr3:17882370..17883316,8	K562	blood:
18	chr19:1441568..1443357-chr3:17881298..17883115,2	MCF-7	breast:

No data

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1004307	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10510478	1.00[JPT][hapmap]
rs11128836	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11128838	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11128849	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11128850	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11128871	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11914537	0.85[CHB][hapmap]
rs11927654	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs12495352	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13062642	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13071301	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13076724	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1430896	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1430904	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1469558	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17200916	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17200979	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17273111	0.89[CEU][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2033373	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2033374	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2033377	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2033378	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2033379	0.89[CEU][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2337387	0.92[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28796017	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4260468	0.96[CEU][hapmap];0.86[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs4312680	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs4330281	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4377510	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4450852	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4611850	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4637311	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs4908942	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4908965	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4908967	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4908978	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4908979	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4908981	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4908982	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4908984	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4908985	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4908986	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4908988	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6577597	0.92[CEU][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6577598	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6771673	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6780932	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6784025	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6787380	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6794859	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6802932	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6804677	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6807020	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7627732	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7632834	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7633898	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7642860	0.85[CEU][hapmap]
rs7651998	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs8179891	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs919562	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9862290	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]

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	nsv999594	chr3:17690416-17982318	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4243834	OXNAD1	cis	cerebellum	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17879800-17884800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:17881600-17883000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:17882000-17882800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr3:17882000-17883200	Enhancers	Dnd41	blood
5	chr3:17882200-17882800	Enhancers	H1 Cell Line	embryonic stem cell
6	chr3:17882200-17882800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:17882200-17882800	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr3:17882200-17882800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr3:17882200-17882800	Enhancers	Brain Hippocampus Middle	brain
10	chr3:17882200-17883000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:17882400-17882800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr3:17882400-17882800	Enhancers	Primary hematopoietic stem cells	blood
13	chr3:17882400-17882800	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr3:17882600-17882800	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr3:17882600-17882800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr3:17882600-17882800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr3:17882600-17882800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:17882600-17882800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr3:17882600-17882800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:17882600-17882800	Enhancers	Hela-S3	cervix
21	chr3:17882600-17883000	Enhancers	Primary B cells from peripheral blood	blood
22	chr3:17882600-17883000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr3:17882600-17883000	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr3:17882600-17883000	Active TSS	Osteobl	bone
25	chr3:17882600-17883200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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