Variant report

Variant	rs34901284
Chromosome Location	chr3:156495135-156495136
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156390850..156393820-chr3:156494797..156498367,4	MCF-7	breast:
2	chr3:156493112..156495639-chr3:156501536..156503604,2	K562	blood:
3	chr3:156491310..156495607-chr3:156498419..156501003,3	K562	blood:

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11914959	0.82[JPT][hapmap]
rs12492585	0.84[ASN][1000 genomes]
rs12497777	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13063433	0.97[ASN][1000 genomes]
rs13090418	1.00[YRI][hapmap]
rs1319418	0.82[JPT][hapmap]
rs1367311	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs168247	0.81[JPT][hapmap]
rs17380702	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17380954	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs184695	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs193197	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs2321291	0.82[JPT][hapmap]
rs237250	0.83[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs25520	1.00[YRI][hapmap]
rs343999	0.84[ASN][1000 genomes]
rs344003	0.84[ASN][1000 genomes]
rs344027	0.83[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs344028	0.84[ASN][1000 genomes]
rs344034	0.84[ASN][1000 genomes]
rs345986	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs35161260	0.90[ASN][1000 genomes]
rs386736	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4234316	0.82[JPT][hapmap]
rs55802527	0.84[ASN][1000 genomes]
rs9289971	1.00[CHB][hapmap]
rs9822906	0.89[AFR][1000 genomes]
rs9871258	0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9873307	1.00[ASN][1000 genomes]
rs9882795	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs9883439	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv877685	chr3:156444383-156611676	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
3	nsv877686	chr3:156489509-156557697	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs34901284	TIPARP-AS1	cis	Artery Tibial	GTEx
rs34901284	LINC00886	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156491000-156499200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:156493600-156495800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr3:156493800-156496200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:156494000-156495400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:156494000-156495400	Enhancers	NHDF-Ad	bronchial
6	chr3:156494000-156496200	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr3:156494400-156495200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:156494400-156495200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr3:156494400-156495400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:156494400-156495400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:156494400-156498800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:156494600-156498200	Weak transcription	K562	blood
13	chr3:156494600-156499200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:156494600-156499200	Weak transcription	HUVEC	blood vessel
15	chr3:156494600-156510800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:156494800-156495200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:156494800-156495200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:156495000-156495200	Enhancers	A549	lung
19	chr3:156495000-156495600	Enhancers	HMEC	breast
20	chr3:156495000-156499000	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr3:156495000-156499000	Weak transcription	Osteobl	bone
22	chr3:156495000-156499200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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