Variant report

Variant	rs10510609
Chromosome Location	chr3:28305301-28305302
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:28282338..28284629-chr3:28303115..28305823,2	K562	blood:
2	chr3:28305069..28306910-chr3:28307661..28310186,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187118	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10510607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12054402	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs17021298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1845166	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs4502545	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4680748	0.87[CHB][hapmap]
rs4680906	0.83[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs55954817	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56029590	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56085195	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7645825	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[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	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28283800-28311400	Weak transcription	Lung	lung
2	chr3:28284000-28309600	Weak transcription	Fetal Muscle Leg	muscle
3	chr3:28284000-28313800	Weak transcription	Ovary	ovary
4	chr3:28284000-28317200	Weak transcription	Gastric	stomach
5	chr3:28284400-28305400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:28284400-28305800	Weak transcription	Hela-S3	cervix
7	chr3:28284400-28311000	Weak transcription	Fetal Intestine Small	intestine
8	chr3:28284400-28312600	Weak transcription	Fetal Lung	lung
9	chr3:28284400-28321800	Weak transcription	NHLF	lung
10	chr3:28284600-28305600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:28284600-28306000	Weak transcription	A549	lung
12	chr3:28284600-28307200	Weak transcription	Fetal Intestine Large	intestine
13	chr3:28284600-28311200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr3:28285200-28305600	Weak transcription	Fetal Thymus	thymus
15	chr3:28285600-28315400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr3:28285800-28305400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:28285800-28311000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:28286000-28306000	Weak transcription	K562	blood
19	chr3:28286000-28307200	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr3:28287600-28317000	Weak transcription	Pancreas	Pancrea
21	chr3:28288600-28311200	Weak transcription	Esophagus	oesophagus
22	chr3:28291400-28311200	Weak transcription	Aorta	Aorta
23	chr3:28292200-28305800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr3:28292800-28311000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr3:28293000-28305600	Weak transcription	Left Ventricle	heart
26	chr3:28293200-28305600	Weak transcription	Primary T cells from cord blood	blood
27	chr3:28293600-28305600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr3:28293600-28311200	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr3:28293800-28305800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr3:28293800-28309800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr3:28294000-28309200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr3:28294200-28314400	Weak transcription	HepG2	liver
33	chr3:28294400-28313800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr3:28294400-28314200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr3:28294600-28313800	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr3:28294800-28313800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr3:28294800-28316400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr3:28295000-28312200	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr3:28295200-28305600	Weak transcription	GM12878-XiMat	blood
40	chr3:28295600-28313800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr3:28295600-28318200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr3:28298200-28309000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr3:28299400-28305400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:28300000-28313800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr3:28300600-28311400	Weak transcription	Brain Anterior Caudate	brain
46	chr3:28301000-28313800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:28301800-28314000	Weak transcription	Brain Angular Gyrus	brain
48	chr3:28302200-28313800	Weak transcription	Primary B cells from peripheral blood	blood
49	chr3:28302600-28309400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr3:28302600-28313800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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