Variant report

Variant	rs3774630
Chromosome Location	chr3:46244273-46244274
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	chr3:46150790..46153435-chr3:46242926..46245585,2	MCF-7	breast:
2	chr3:46242531..46244471-chr3:46245460..46247325,2	K562	blood:

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10510748	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10510749	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11929489	0.87[EUR][1000 genomes]
rs13059906	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13061548	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13062450	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13062523	0.87[EUR][1000 genomes]
rs13069467	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13069750	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13069845	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13070099	0.95[EUR][1000 genomes]
rs13075270	0.88[EUR][1000 genomes]
rs13075836	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13080979	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13082995	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13083881	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13083914	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13084057	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13084175	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13088766	0.87[EUR][1000 genomes]
rs13089907	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13090848	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13092160	0.92[EUR][1000 genomes]
rs13095940	0.93[EUR][1000 genomes]
rs13095946	0.92[EUR][1000 genomes]
rs13096307	0.93[EUR][1000 genomes]
rs13096325	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13096371	0.93[EUR][1000 genomes]
rs13096873	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13097340	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13097666	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13098911	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17078704	0.93[ASN][1000 genomes]
rs17216717	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17282797	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17282922	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3091314	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3136672	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3136673	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3176824	0.89[EUR][1000 genomes]
rs3176825	0.95[EUR][1000 genomes]
rs3176826	0.95[EUR][1000 genomes]
rs3181076	0.95[EUR][1000 genomes]
rs3181078	0.95[EUR][1000 genomes]
rs3181080	0.95[EUR][1000 genomes]
rs34013035	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34047458	0.92[EUR][1000 genomes]
rs34059564	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34101673	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34134191	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34198655	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34280313	0.95[EUR][1000 genomes]
rs34340501	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34376347	0.84[EUR][1000 genomes]
rs34378541	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34401473	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34409248	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34423195	0.95[EUR][1000 genomes]
rs34498313	0.87[EUR][1000 genomes]
rs34523728	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34531115	0.92[EUR][1000 genomes]
rs34558763	0.84[AMR][1000 genomes]
rs34567015	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34570200	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34611049	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34625088	0.92[EUR][1000 genomes]
rs34693386	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34759782	0.87[EUR][1000 genomes]
rs34865316	0.93[EUR][1000 genomes]
rs34870159	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34897745	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34919616	0.95[EUR][1000 genomes]
rs34920132	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34985947	0.87[EUR][1000 genomes]
rs34996127	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35111399	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35178150	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35195804	0.87[EUR][1000 genomes]
rs35288652	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35335084	0.92[EUR][1000 genomes]
rs35354367	0.95[EUR][1000 genomes]
rs35429781	0.92[EUR][1000 genomes]
rs35434266	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35560301	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35566550	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35587265	0.92[EUR][1000 genomes]
rs35614049	0.92[EUR][1000 genomes]
rs35617677	0.92[EUR][1000 genomes]
rs35685805	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35754688	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35775079	0.92[EUR][1000 genomes]
rs35853141	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35919278	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35942803	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35960950	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35984988	0.87[EUR][1000 genomes]
rs36010446	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36189995	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41432345	0.91[EUR][1000 genomes]
rs41537946	0.87[EUR][1000 genomes]
rs4443214	0.87[ASN][1000 genomes]
rs4493469	0.93[ASN][1000 genomes]
rs57115330	0.86[EUR][1000 genomes]
rs6765904	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327035	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327036	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327038	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71327039	0.92[EUR][1000 genomes]
rs7631551	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46235400-46247600	Weak transcription	Placenta	Placenta
2	chr3:46235400-46249600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:46239800-46249400	Weak transcription	Primary T cells from cord blood	blood
4	chr3:46241000-46244600	Weak transcription	Spleen	Spleen
5	chr3:46241200-46246600	Genic enhancers	Primary monocytes fromperipheralblood	blood
6	chr3:46241600-46247400	Weak transcription	Brain Substantia Nigra	brain
7	chr3:46242400-46246800	Weak transcription	Brain Hippocampus Middle	brain
8	chr3:46242800-46247400	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
9	chr3:46243000-46244600	Weak transcription	Fetal Lung	lung
10	chr3:46243000-46249000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:46243200-46244400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr3:46243200-46244600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:46243200-46244600	Weak transcription	Lung	lung
14	chr3:46243200-46246200	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr3:46243200-46246600	Weak transcription	Adipose Nuclei	Adipose
16	chr3:46243400-46247800	Weak transcription	Duodenum Mucosa	Duodenum
17	chr3:46243600-46247200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:46243800-46244600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:46243800-46249400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:46244000-46246600	Weak transcription	GM12878-XiMat	blood
21	chr3:46244200-46246600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood

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