Variant report

Variant	rs9873028
Chromosome Location	chr3:141615989-141615990
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141609203..141611143-chr3:141614012..141616232,3	K562	blood:
2	chr3:141456404..141459700-chr3:141613701..141617116,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114125	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1073464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12386355	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13059220	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13061474	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067998	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069329	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13082115	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13086153	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1897139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35681935	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4260404	0.82[CEU][hapmap];0.81[CHB][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5013124	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8179925	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8179994	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9810380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9827902	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]
rs9836116	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9850595	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9855878	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9858477	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878540	0.90[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[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:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141596400-141626400	Weak transcription	Pancreas	Pancrea
2	chr3:141597000-141625200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr3:141597000-141646400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:141597200-141625800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr3:141597400-141618800	Weak transcription	Primary B cells from peripheral blood	blood
6	chr3:141597400-141618800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr3:141597800-141617200	Weak transcription	Primary B cells from cord blood	blood
8	chr3:141597800-141617400	Weak transcription	HSMM	muscle
9	chr3:141597800-141619000	Weak transcription	Lung	lung
10	chr3:141597800-141627000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr3:141598000-141618600	Weak transcription	Fetal Intestine Large	intestine
12	chr3:141598000-141618800	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:141598000-141619200	Weak transcription	Psoas Muscle	Psoas
14	chr3:141598000-141625400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr3:141598000-141626000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr3:141598000-141627000	Weak transcription	Brain Hippocampus Middle	brain
17	chr3:141598000-141627200	Weak transcription	Colonic Mucosa	Colon
18	chr3:141598000-141642000	Weak transcription	Right Ventricle	heart
19	chr3:141598200-141616600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:141598200-141626000	Weak transcription	Colon Smooth Muscle	Colon
21	chr3:141598200-141627200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:141598200-141640200	Weak transcription	Fetal Brain Male	brain
23	chr3:141598200-141640200	Weak transcription	Rectal Smooth Muscle	rectum
24	chr3:141598400-141618200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr3:141598400-141622200	Weak transcription	Left Ventricle	heart
26	chr3:141598400-141623800	Weak transcription	NH-A	brain
27	chr3:141600400-141618800	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr3:141600400-141619000	Weak transcription	Fetal Brain Female	brain
29	chr3:141600600-141619400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr3:141600800-141618200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr3:141600800-141619000	Weak transcription	Adipose Nuclei	Adipose
32	chr3:141600800-141619000	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr3:141601200-141617200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr3:141602400-141619000	Weak transcription	Fetal Stomach	stomach
35	chr3:141604000-141617200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr3:141605200-141616600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr3:141605200-141627200	Weak transcription	Primary T cells from cord blood	blood
38	chr3:141605600-141618800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:141606200-141623600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr3:141606800-141625200	Weak transcription	HSMMtube	muscle
41	chr3:141607200-141616600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:141607200-141623800	Weak transcription	HUVEC	blood vessel
43	chr3:141607400-141616800	Weak transcription	Primary hematopoietic stem cells	blood
44	chr3:141608000-141618200	Weak transcription	Thymus	Thymus
45	chr3:141608000-141618800	Weak transcription	Esophagus	oesophagus
46	chr3:141609000-141618800	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr3:141610800-141617400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr3:141611200-141617200	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr3:141611600-141616800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr3:141612600-141619000	Weak transcription	Rectal Mucosa Donor 31	rectum

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