Variant report

Variant	rs35880395
Chromosome Location	chr3:136507090-136507091
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	chr3:136470232..136471978-chr3:136506228..136508578,2	MCF-7	breast:
2	chr3:136503077..136505635-chr3:136505937..136507596,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118007	Chromatin interaction
ENSG00000261758	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1052620	1.00[ASN][1000 genomes]
rs12695649	1.00[ASN][1000 genomes]
rs13062352	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066401	1.00[ASN][1000 genomes]
rs13071220	1.00[ASN][1000 genomes]
rs13080786	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13100192	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13314357	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13326151	1.00[ASN][1000 genomes]
rs13433683	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13433688	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13434116	1.00[ASN][1000 genomes]
rs17365792	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1872239	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2176269	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28370972	1.00[ASN][1000 genomes]
rs28390205	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28472992	1.00[ASN][1000 genomes]
rs28489326	1.00[ASN][1000 genomes]
rs28641809	1.00[ASN][1000 genomes]
rs28750366	1.00[ASN][1000 genomes]
rs28877020	1.00[ASN][1000 genomes]
rs34564818	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34645606	1.00[ASN][1000 genomes]
rs34804893	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35096613	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35100027	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35198484	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35210994	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35422852	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35428413	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36109616	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36177165	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4038586	1.00[ASN][1000 genomes]
rs4470449	1.00[ASN][1000 genomes]
rs66509730	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67145204	1.00[ASN][1000 genomes]
rs67382287	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767889	1.00[ASN][1000 genomes]
rs6774964	1.00[ASN][1000 genomes]
rs6806123	1.00[ASN][1000 genomes]
rs71310215	0.81[AMR][1000 genomes]
rs71336069	1.00[ASN][1000 genomes]
rs71336080	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73230043	1.00[ASN][1000 genomes]
rs73230099	1.00[ASN][1000 genomes]
rs73231903	1.00[ASN][1000 genomes]
rs9289513	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9809269	1.00[ASN][1000 genomes]
rs9809988	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813376	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819856	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820717	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828976	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838884	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9840500	1.00[ASN][1000 genomes]
rs9845862	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847427	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850364	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857833	1.00[ASN][1000 genomes]
rs9857966	1.00[ASN][1000 genomes]
rs9858560	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9860879	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9865995	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9867325	1.00[ASN][1000 genomes]
rs9871184	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9873536	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875770	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9879531	1.00[ASN][1000 genomes]
rs9881831	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883189	1.00[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	nsv1006737	chr3:136466188-136530743	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136500200-136508000	Enhancers	Placenta	Placenta
2	chr3:136504800-136507200	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:136505000-136507400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr3:136505400-136507200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:136505400-136507200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr3:136505400-136508800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:136505800-136507400	Enhancers	Esophagus	oesophagus
8	chr3:136506000-136507200	Enhancers	Brain Angular Gyrus	brain
9	chr3:136506000-136507200	Enhancers	Fetal Lung	lung
10	chr3:136506000-136507200	Enhancers	Skeletal Muscle Male	skeletal muscle
11	chr3:136506000-136507200	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr3:136506000-136507200	Enhancers	Stomach Smooth Muscle	stomach
13	chr3:136506000-136507200	Enhancers	HSMMtube	muscle
14	chr3:136506000-136507400	Enhancers	Brain Substantia Nigra	brain
15	chr3:136506000-136507400	Enhancers	Rectal Smooth Muscle	rectum
16	chr3:136506000-136507400	Enhancers	Right Atrium	heart
17	chr3:136506000-136507600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr3:136506200-136507200	Enhancers	NHDF-Ad	bronchial
19	chr3:136506200-136507400	Enhancers	Colon Smooth Muscle	Colon
20	chr3:136506200-136509200	Enhancers	Adipose Nuclei	Adipose
21	chr3:136506400-136507200	Enhancers	Rectal Mucosa Donor 29	rectum
22	chr3:136506400-136507200	Enhancers	Osteobl	bone
23	chr3:136506400-136507400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:136506400-136508600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:136506400-136511400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:136506400-136521000	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr3:136506600-136507200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:136506600-136507200	Weak transcription	Psoas Muscle	Psoas
29	chr3:136506600-136507400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:136506600-136507400	Enhancers	NHLF	lung
31	chr3:136506600-136508600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr3:136506600-136508600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr3:136506600-136508600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr3:136506600-136510000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr3:136506600-136511200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr3:136506600-136511200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr3:136506600-136511200	Weak transcription	Brain Anterior Caudate	brain
38	chr3:136506600-136511200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr3:136506600-136511200	Weak transcription	Brain Hippocampus Middle	brain
40	chr3:136506600-136511200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr3:136506600-136511200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr3:136506600-136511200	Weak transcription	Fetal Brain Male	brain
43	chr3:136506600-136511400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr3:136506600-136511800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr3:136506600-136521000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr3:136506600-136521200	Weak transcription	Hela-S3	cervix
47	chr3:136506800-136511200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:136506800-136511400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr3:136506800-136511600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr3:136506800-136511800	Weak transcription	Primary hematopoietic stem cells	blood

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