Variant report

Variant	rs9827902
Chromosome Location	chr3:141627083-141627084
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	chr3:141625787..141627994-chr3:141631487..141633848,2	K562	blood:
2	chr3:141607282..141610185-chr3:141626378..141628187,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1073464	0.90[CEU][hapmap];0.91[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11569185	1.00[YRI][hapmap]
rs12386355	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13059220	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13061474	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13067998	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13069329	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13082115	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13086153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1897139	0.90[CEU][hapmap];0.91[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35681935	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4260404	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs5013124	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs8179925	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8179994	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9810380	0.90[CEU][hapmap];0.91[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9822066	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9836116	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9850595	0.90[CEU][hapmap];0.86[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9855878	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9858477	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9873028	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9878540	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1013352	chr3:141541105-141870293	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141597000-141646400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:141598000-141627200	Weak transcription	Colonic Mucosa	Colon
3	chr3:141598000-141642000	Weak transcription	Right Ventricle	heart
4	chr3:141598200-141627200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:141598200-141640200	Weak transcription	Fetal Brain Male	brain
6	chr3:141598200-141640200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:141605200-141627200	Weak transcription	Primary T cells from cord blood	blood
8	chr3:141616200-141646600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr3:141616200-141648600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:141616800-141627200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:141618000-141633600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:141619400-141627200	Weak transcription	Brain Germinal Matrix	brain
13	chr3:141619400-141641600	Weak transcription	Ovary	ovary
14	chr3:141619600-141628400	Weak transcription	Psoas Muscle	Psoas
15	chr3:141619600-141640200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:141619600-141644000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr3:141619800-141633200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:141620400-141641200	Weak transcription	Spleen	Spleen
19	chr3:141620600-141631600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
20	chr3:141620800-141646800	Weak transcription	Gastric	stomach
21	chr3:141621000-141627200	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr3:141621000-141646600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:141621000-141670800	Weak transcription	Small Intestine	intestine
24	chr3:141621800-141627200	Weak transcription	Brain Anterior Caudate	brain
25	chr3:141622000-141645000	Strong transcription	Dnd41	blood
26	chr3:141622000-141647600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr3:141622200-141628600	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr3:141622200-141628800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:141622200-141628800	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr3:141622200-141630800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:141622200-141631400	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr3:141622200-141631600	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr3:141622400-141629400	Strong transcription	Hela-S3	cervix
34	chr3:141622400-141631600	Strong transcription	Fetal Intestine Small	intestine
35	chr3:141622400-141647000	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr3:141622600-141631800	Strong transcription	NHEK	skin
37	chr3:141622600-141633200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr3:141622600-141644800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:141622800-141628800	Strong transcription	HepG2	liver
40	chr3:141622800-141629800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:141623000-141627600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr3:141623200-141628600	Strong transcription	Placenta	Placenta
43	chr3:141623600-141629000	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr3:141623600-141629400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr3:141623600-141630600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr3:141623600-141652400	Strong transcription	Fetal Thymus	thymus
47	chr3:141623800-141628800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr3:141623800-141628800	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr3:141623800-141629200	Strong transcription	HUVEC	blood vessel
50	chr3:141623800-141629200	Strong transcription	K562	blood

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