Variant report

Variant	rs10817459
Chromosome Location	chr9:115974657-115974658
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	chr9:115951377..115953931-chr9:115974239..115975925,2	MCF-7	breast:
2	chr9:115974346..115976683-chr9:115980205..115982463,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10759634	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817462	0.85[EUR][1000 genomes]
rs10817463	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817464	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817466	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817469	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817471	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10817472	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10981674	0.85[EUR][1000 genomes]
rs10981681	0.88[EUR][1000 genomes]
rs10981683	0.88[EUR][1000 genomes]
rs10981690	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10981695	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10981705	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1128116	0.85[EUR][1000 genomes]
rs1128118	0.85[EUR][1000 genomes]
rs1128122	0.88[EUR][1000 genomes]
rs12115388	0.85[EUR][1000 genomes]
rs12350438	0.88[EUR][1000 genomes]
rs57247612	0.85[EUR][1000 genomes]
rs57348436	0.88[EUR][1000 genomes]
rs7858741	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[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	chr9:115920800-115975000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr9:115923400-115976400	Strong transcription	Primary T cells fromperipheralblood	blood
3	chr9:115936800-115982400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:115945400-115977200	Weak transcription	Stomach Mucosa	stomach
5	chr9:115945600-115982800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:115950600-115982400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:115950800-115982800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:115951000-115982800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr9:115962800-115976800	Weak transcription	Small Intestine	intestine
10	chr9:115964000-115976000	Strong transcription	Fetal Brain Female	brain
11	chr9:115964000-115977000	Weak transcription	Psoas Muscle	Psoas
12	chr9:115964800-115979200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:115965200-115980800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr9:115965200-115982000	Weak transcription	Colonic Mucosa	Colon
15	chr9:115965200-115982000	Weak transcription	Fetal Brain Male	brain
16	chr9:115965200-115982200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr9:115965400-115980800	Weak transcription	Brain Angular Gyrus	brain
18	chr9:115967000-115975200	Strong transcription	Dnd41	blood
19	chr9:115969000-115982400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:115969400-115981800	Weak transcription	HSMM	muscle
21	chr9:115969600-115976000	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr9:115969600-115977200	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr9:115969600-115980800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr9:115969600-115980800	Weak transcription	HepG2	liver
25	chr9:115969600-115981600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr9:115969600-115982400	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr9:115969600-115982400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr9:115970000-115982800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr9:115970400-115981800	Weak transcription	NH-A	brain
30	chr9:115970600-115981800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr9:115971600-115982000	Weak transcription	NHDF-Ad	bronchial
32	chr9:115971800-115981000	Weak transcription	NHEK	skin
33	chr9:115971800-115982000	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr9:115972000-115980800	Weak transcription	Osteobl	bone
35	chr9:115972400-115976600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:115972400-115981200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr9:115972400-115981200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr9:115972400-115981600	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr9:115972600-115976600	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr9:115972600-115977400	Weak transcription	HUVEC	blood vessel
41	chr9:115972600-115978000	Weak transcription	K562	blood
42	chr9:115972600-115980800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr9:115972600-115981600	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr9:115972600-115981800	Weak transcription	HMEC	breast
45	chr9:115972600-115982800	Weak transcription	Gastric	stomach
46	chr9:115972800-115980800	Weak transcription	Brain Anterior Caudate	brain
47	chr9:115972800-115981000	Weak transcription	Brain Germinal Matrix	brain
48	chr9:115972800-115981800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr9:115972800-115982000	Weak transcription	HSMMtube	muscle
50	chr9:115973000-115977400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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