Variant report

Variant	rs34277251
Chromosome Location	chr3:156421525-156421526
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156391290..156393892-chr3:156420316..156422645,2	MCF-7	breast:
2	chr3:156419995..156422332-chr3:156437118..156439741,2	K562	blood:
3	chr3:156413591..156415384-chr3:156421420..156423521,2	K562	blood:
4	chr3:156397309..156399430-chr3:156420727..156423184,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11709829	0.89[ASN][1000 genomes]
rs12107178	0.80[AMR][1000 genomes]
rs13061457	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13322900	0.81[ASN][1000 genomes]
rs1469536	0.91[ASN][1000 genomes]
rs1560414	0.89[ASN][1000 genomes]
rs2171542	0.82[ASN][1000 genomes]
rs3851992	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4273327	0.84[AFR][1000 genomes]
rs66538320	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][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	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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs34277251	LINC00886	cis	Skin Sun Exposed Lower leg	GTEx
rs34277251	TIPARP-AS1	cis	Thyroid	GTEx

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156394000-156436000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:156395600-156438600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:156396400-156424800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:156396600-156441000	Weak transcription	Lung	lung
5	chr3:156403400-156421800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:156407800-156422000	Weak transcription	Fetal Brain Female	brain
7	chr3:156407800-156423800	Weak transcription	Spleen	Spleen
8	chr3:156407800-156424000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:156407800-156428200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:156409000-156429800	Weak transcription	Gastric	stomach
11	chr3:156409200-156422000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:156409200-156425400	Weak transcription	Colonic Mucosa	Colon
13	chr3:156409400-156422200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:156409400-156425600	Weak transcription	Fetal Brain Male	brain
15	chr3:156409600-156422400	Weak transcription	Fetal Stomach	stomach
16	chr3:156410000-156427400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:156411000-156424200	Genic enhancers	Muscle Satellite Cultured Cells	--
18	chr3:156411400-156426000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr3:156411600-156422200	Weak transcription	Stomach Mucosa	stomach
20	chr3:156411600-156426000	Strong transcription	HSMMtube	muscle
21	chr3:156411600-156429000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr3:156411800-156425400	Strong transcription	Hela-S3	cervix
23	chr3:156412000-156421800	Strong transcription	Liver	Liver
24	chr3:156412400-156429400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr3:156412600-156422000	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr3:156412600-156429200	Strong transcription	HSMM	muscle
27	chr3:156413400-156422000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:156414400-156423800	Weak transcription	Fetal Lung	lung
29	chr3:156414600-156421800	Weak transcription	Colon Smooth Muscle	Colon
30	chr3:156414800-156422000	Weak transcription	Brain Angular Gyrus	brain
31	chr3:156414800-156422000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr3:156414800-156426600	Weak transcription	Brain Germinal Matrix	brain
33	chr3:156415200-156421800	Weak transcription	Placenta	Placenta
34	chr3:156415200-156422000	Weak transcription	Small Intestine	intestine
35	chr3:156415600-156421800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr3:156416000-156421800	Weak transcription	Brain Anterior Caudate	brain
37	chr3:156416000-156421800	Weak transcription	Fetal Kidney	kidney
38	chr3:156416000-156437000	Weak transcription	Pancreas	Pancrea
39	chr3:156416000-156443000	Weak transcription	Aorta	Aorta
40	chr3:156416200-156421800	Weak transcription	Rectal Smooth Muscle	rectum
41	chr3:156416200-156421800	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr3:156416200-156422000	Weak transcription	Thymus	Thymus
43	chr3:156416200-156422200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr3:156416400-156421800	Weak transcription	Fetal Muscle Trunk	muscle
45	chr3:156416800-156422000	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr3:156416800-156422000	Weak transcription	Psoas Muscle	Psoas
47	chr3:156417000-156421800	Weak transcription	Fetal Muscle Leg	muscle
48	chr3:156417000-156422000	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr3:156417000-156430400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr3:156417400-156423600	Weak transcription	Left Ventricle	heart

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