Variant report

Variant	rs10821410
Chromosome Location	chr9:97643013-97643014
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97640729..97643418-chr9:97677399..97680018,2	MCF-7	breast:
2	chr9:97640899..97643215-chr9:97662419..97664357,2	MCF-7	breast:
3	chr9:97567997..97570144-chr9:97641806..97644523,2	MCF-7	breast:
4	chr9:97633916..97636147-chr9:97641921..97644696,2	MCF-7	breast:
5	chr9:97640769..97645412-chr9:97646279..97650520,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236095	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10081676	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10217143	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739983	0.80[EUR][1000 genomes]
rs10761361	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821392	0.80[EUR][1000 genomes]
rs10821393	0.80[EUR][1000 genomes]
rs10821398	0.82[CEU][hapmap];0.81[YRI][hapmap]
rs10821404	0.83[EUR][1000 genomes]
rs10821413	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10993387	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10993398	0.81[CHB][hapmap]
rs11788697	0.82[EUR][1000 genomes]
rs12338409	0.81[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12338859	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12344211	0.81[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12347649	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1867102	0.89[CEU][hapmap];0.95[CHB][hapmap];0.83[YRI][hapmap];0.88[EUR][1000 genomes]
rs2031698	0.80[EUR][1000 genomes]
rs4743969	0.81[CEU][hapmap];0.87[EUR][1000 genomes]
rs4743974	0.81[AMR][1000 genomes]
rs4744386	0.81[CEU][hapmap];0.81[CHB][hapmap];0.87[EUR][1000 genomes]
rs4744411	0.81[CHB][hapmap]
rs4744412	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7027708	0.80[EUR][1000 genomes]
rs7847277	0.85[EUR][1000 genomes]
rs7862219	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7865239	0.81[CHB][hapmap]
rs7870160	0.86[JPT][hapmap]
rs9802263	0.81[AMR][1000 genomes];0.81[EUR][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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97630000-97645000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr9:97630600-97643600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr9:97630800-97644200	Weak transcription	Adipose Nuclei	Adipose
4	chr9:97631800-97645600	Weak transcription	Small Intestine	intestine
5	chr9:97632000-97646000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:97633400-97646800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
8	chr9:97634000-97646600	Weak transcription	Spleen	Spleen
9	chr9:97634000-97646800	Weak transcription	Stomach Mucosa	stomach
10	chr9:97635200-97645600	Weak transcription	Placenta	Placenta
11	chr9:97635400-97644200	Weak transcription	Left Ventricle	heart
12	chr9:97635600-97644000	Weak transcription	Ovary	ovary
13	chr9:97637800-97643200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr9:97637800-97645200	Weak transcription	NH-A	brain
15	chr9:97638200-97644000	Weak transcription	Primary B cells from cord blood	blood
16	chr9:97638400-97643200	Weak transcription	Fetal Kidney	kidney
17	chr9:97638400-97643800	Weak transcription	Primary B cells from peripheral blood	blood
18	chr9:97638400-97643800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr9:97638400-97647600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr9:97638600-97644000	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr9:97638600-97661800	Weak transcription	Fetal Intestine Small	intestine
22	chr9:97640000-97644600	Enhancers	HSMM	muscle
23	chr9:97640200-97644000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr9:97640400-97643600	Weak transcription	Aorta	Aorta
25	chr9:97640400-97646400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr9:97640600-97645400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr9:97640600-97645400	Weak transcription	Brain Substantia Nigra	brain
28	chr9:97640800-97645600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:97641000-97645600	Weak transcription	Brain Anterior Caudate	brain
30	chr9:97641000-97647400	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr9:97641000-97648600	Enhancers	Fetal Heart	heart
32	chr9:97641000-97650000	Weak transcription	Brain Angular Gyrus	brain
33	chr9:97641200-97643800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr9:97641200-97647800	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr9:97641400-97647400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr9:97641400-97647400	Weak transcription	Psoas Muscle	Psoas
37	chr9:97641600-97643200	Weak transcription	Osteobl	bone
38	chr9:97641600-97646600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:97641800-97643200	Weak transcription	Fetal Stomach	stomach
40	chr9:97641800-97643400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:97641800-97647400	Weak transcription	Hela-S3	cervix
42	chr9:97641800-97647400	Weak transcription	K562	blood
43	chr9:97642000-97643200	Weak transcription	Brain Hippocampus Middle	brain
44	chr9:97642000-97643400	Weak transcription	GM12878-XiMat	blood
45	chr9:97642600-97646400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr9:97642800-97643800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr9:97642800-97644400	Enhancers	HSMMtube	muscle
48	chr9:97642800-97644600	Enhancers	Breast Myoepithelial Primary Cells	Breast
49	chr9:97642800-97644800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr9:97642800-97644800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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