Variant report

Variant	rs3774410
Chromosome Location	chr3:52472412-52472413
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:52463683..52467756-chr3:52469500..52473710,3	K562	blood:
2	chr3:52470597..52472566-chr3:52486223..52488356,2	K562	blood:
3	chr3:52471886..52474834-chr3:52476062..52479987,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000010319	Chromatin interaction
ENSG00000114854	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1011062	1.00[JPT][hapmap]
rs1011063	1.00[JPT][hapmap]
rs1011064	1.00[JPT][hapmap]
rs1077142	1.00[JPT][hapmap]
rs10865972	1.00[JPT][hapmap]
rs11707864	1.00[JPT][hapmap]
rs11707931	1.00[JPT][hapmap]
rs11709658	1.00[JPT][hapmap]
rs11711934	1.00[JPT][hapmap]
rs11714402	1.00[JPT][hapmap]
rs11716017	1.00[JPT][hapmap]
rs11718125	1.00[JPT][hapmap]
rs11721286	1.00[JPT][hapmap]
rs123598	1.00[JPT][hapmap]
rs123602	1.00[JPT][hapmap]
rs123603	1.00[JPT][hapmap]
rs13059674	1.00[JPT][hapmap]
rs13060192	1.00[JPT][hapmap]
rs13071708	1.00[JPT][hapmap]
rs13075370	1.00[JPT][hapmap]
rs13076508	1.00[JPT][hapmap]
rs13076890	1.00[JPT][hapmap]
rs13091360	1.00[JPT][hapmap]
rs13091545	1.00[JPT][hapmap]
rs1541495	1.00[JPT][hapmap]
rs17052058	1.00[JPT][hapmap]
rs17052061	1.00[JPT][hapmap]
rs17052068	1.00[JPT][hapmap]
rs2016575	1.00[JPT][hapmap]
rs2109558	1.00[JPT][hapmap]
rs2109559	1.00[JPT][hapmap]
rs2159607	1.00[JPT][hapmap]
rs2215466	1.00[JPT][hapmap]
rs2335640	1.00[JPT][hapmap]
rs2878549	1.00[JPT][hapmap]
rs34551211	1.00[JPT][hapmap]
rs34762015	1.00[JPT][hapmap]
rs35860312	1.00[JPT][hapmap]
rs3774409	1.00[JPT][hapmap]
rs3796343	1.00[JPT][hapmap]
rs390802	1.00[JPT][hapmap]
rs409803	1.00[JPT][hapmap]
rs419050	1.00[JPT][hapmap]
rs419604	1.00[JPT][hapmap]
rs419752	1.00[JPT][hapmap]
rs4312651	1.00[JPT][hapmap]
rs4687614	1.00[JPT][hapmap]
rs4687617	1.00[JPT][hapmap]
rs4687618	1.00[JPT][hapmap]
rs4687619	1.00[JPT][hapmap]
rs498778	1.00[JPT][hapmap]
rs498946	1.00[JPT][hapmap]
rs613519	1.00[JPT][hapmap]
rs634382	1.00[JPT][hapmap]
rs6445386	1.00[JPT][hapmap]
rs6445486	1.00[JPT][hapmap]
rs6445506	1.00[JPT][hapmap]
rs676034	1.00[JPT][hapmap]
rs6763882	1.00[JPT][hapmap]
rs6771558	1.00[JPT][hapmap]
rs6784615	1.00[JPT][hapmap]
rs6796333	1.00[JPT][hapmap]
rs6800707	1.00[JPT][hapmap]
rs6810027	1.00[JPT][hapmap]
rs728408	1.00[JPT][hapmap]
rs758803	1.00[JPT][hapmap]
rs7620015	1.00[JPT][hapmap]
rs82825	1.00[JPT][hapmap]
rs887514	1.00[JPT][hapmap]
rs887515	1.00[JPT][hapmap]
rs929528	1.00[JPT][hapmap]
rs9844183	1.00[JPT][hapmap]
rs9846089	1.00[JPT][hapmap]
rs9855470	1.00[JPT][hapmap]
rs9863753	1.00[JPT][hapmap]
rs9867823	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876789	chr3:52247110-52575831	Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
2	nsv984542	chr3:52285682-52516115	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	94 gene(s)	inside rSNPs	diseases
3	nsv834696	chr3:52317478-52479537	Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	45 gene(s)	inside rSNPs	diseases
4	nsv834697	chr3:52400578-52579417	Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv876792	chr3:52430526-52575831	Flanking Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	nsv876793	chr3:52450043-52584787	Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv590303	chr3:52469785-52478428	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52450200-52478400	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr3:52462800-52473600	Enhancers	Fetal Muscle Leg	muscle
3	chr3:52464600-52477400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:52466400-52473200	Enhancers	Spleen	Spleen
5	chr3:52467400-52477600	Weak transcription	HUVEC	blood vessel
6	chr3:52468600-52477600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:52469000-52478200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:52469200-52476800	Weak transcription	Left Ventricle	heart
9	chr3:52469600-52475200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr3:52470400-52475000	Genic enhancers	Adipose Nuclei	Adipose
11	chr3:52470800-52484200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr3:52471000-52473600	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr3:52471000-52475600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:52471200-52477200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:52471400-52472800	Enhancers	HMEC	breast
16	chr3:52471400-52473600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:52471400-52478000	Weak transcription	Right Atrium	heart
18	chr3:52471600-52472600	Enhancers	Esophagus	oesophagus
19	chr3:52471600-52472600	Enhancers	Stomach Mucosa	stomach
20	chr3:52471600-52474200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr3:52471600-52475400	Weak transcription	Fetal Stomach	stomach
22	chr3:52472000-52472800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr3:52472000-52473200	Enhancers	Placenta	Placenta
24	chr3:52472200-52472600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:52472200-52472800	Weak transcription	Colonic Mucosa	Colon
26	chr3:52472200-52473000	Weak transcription	Right Ventricle	heart
27	chr3:52472200-52473200	Enhancers	Fetal Muscle Trunk	muscle
28	chr3:52472200-52473400	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr3:52472200-52478200	Weak transcription	Gastric	stomach
30	chr3:52472200-52478600	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr3:52472400-52472800	Weak transcription	Lung	lung
32	chr3:52472400-52475400	Strong transcription	HepG2	liver

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