Variant report

Variant	rs10817456
Chromosome Location	chr9:115965868-115965869
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:115964326..115966174-chr9:115967230..115970062,3	MCF-7	breast:
2	chr9:115963672..115965977-chr9:115972388..115974143,2	MCF-7	breast:
3	chr9:115965291..115966796-chr9:115969248..115971645,2	K562	blood:
4	chr9:115961079..115963509-chr9:115965175..115968224,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119321	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10817452	0.87[AFR][1000 genomes]
rs10817457	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817458	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981671	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12380325	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34493639	0.87[AFR][1000 genomes]
rs3810909	0.83[AFR][1000 genomes]
rs3827673	0.87[AFR][1000 genomes]
rs4596714	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6477995	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7865937	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7866724	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
4	nsv1035406	chr9:115883978-116003980	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540201	chr9:115883978-116003980	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
7	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
8	nsv893745	chr9:115955271-116005783	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1041112	chr9:115960704-116005783	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115920000-115970200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:115920000-115973400	Strong transcription	Rectal Mucosa Donor 29	rectum
3	chr9:115920400-115973400	Strong transcription	Primary T helper cells fromperipheralblood	blood
4	chr9:115920800-115966400	Strong transcription	Dnd41	blood
5	chr9:115920800-115975000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:115923400-115976400	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr9:115924200-115969600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr9:115927600-115973400	Strong transcription	Skeletal Muscle Female	skeletal muscle
9	chr9:115936800-115982400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:115941200-115968600	Strong transcription	Primary B cells from peripheral blood	blood
11	chr9:115941200-115969200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:115945400-115977200	Weak transcription	Stomach Mucosa	stomach
13	chr9:115945600-115982800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr9:115950400-115972800	Weak transcription	Right Ventricle	heart
15	chr9:115950600-115968600	Weak transcription	Fetal Heart	heart
16	chr9:115950600-115982400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr9:115950800-115982800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:115951000-115972200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:115951000-115972200	Weak transcription	Gastric	stomach
20	chr9:115951000-115972200	Weak transcription	Pancreas	Pancrea
21	chr9:115951000-115974000	Strong transcription	Placenta	Placenta
22	chr9:115951000-115982800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr9:115951400-115967800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:115952200-115968000	Strong transcription	GM12878-XiMat	blood
25	chr9:115952200-115974400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:115952400-115973400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr9:115952400-115973600	Strong transcription	Adipose Nuclei	Adipose
28	chr9:115952400-115974400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr9:115953400-115967200	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr9:115953600-115967600	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr9:115954600-115973600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr9:115956000-115973400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr9:115956200-115971800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr9:115956600-115968800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr9:115956600-115972200	Weak transcription	Aorta	Aorta
36	chr9:115956600-115972200	Weak transcription	Esophagus	oesophagus
37	chr9:115957200-115966400	Strong transcription	Primary neutrophils fromperipheralblood	blood
38	chr9:115957400-115970000	Strong transcription	HUVEC	blood vessel
39	chr9:115957600-115967200	Strong transcription	Primary B cells from cord blood	blood
40	chr9:115957600-115972000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr9:115957600-115974000	Strong transcription	Duodenum Mucosa	Duodenum
42	chr9:115957800-115970800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr9:115957800-115974400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr9:115957800-115974400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr9:115958000-115974000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr9:115958400-115972400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr9:115958600-115967600	Weak transcription	NHLF	lung
48	chr9:115958800-115967400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr9:115958800-115971400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr9:115959000-115969600	Strong transcription	Brain Hippocampus Middle	brain

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