Variant report

Variant	rs10491804
Chromosome Location	chr9:95487407-95487408
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:95486449..95488708-chr9:95489752..95492934,4	K562	blood:
2	chr9:95486460..95489188-chr9:95491019..95493558,2	K562	blood:
3	chr9:95086396..95088682-chr9:95485329..95488203,2	MCF-7	breast:
4	chr9:95432957..95435683-chr9:95486350..95488699,2	MCF-7	breast:
5	chr9:95486636..95488536-chr9:95489832..95492725,3	MCF-7	breast:
6	chr9:95486744..95488866-chr9:95531575..95533845,2	MCF-7	breast:
7	chr9:95485854..95488848-chr9:95526219..95528581,4	MCF-7	breast:
8	chr9:95486445..95488798-chr9:95526364..95530129,4	K562	blood:
9	chr9:95481018..95487899-chr9:95523684..95529726,11	MCF-7	breast:
10	chr9:95478967..95480726-chr9:95484940..95487437,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000185963	Chromatin interaction
ENSG00000188312	Chromatin interaction
ENSG00000198000	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10118939	0.92[CEU][hapmap]
rs10120915	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10121597	1.00[ASN][1000 genomes]
rs10122383	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124058	0.94[EUR][1000 genomes]
rs10125587	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs1022844	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap];1.00[ASN][1000 genomes]
rs10821008	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs10992393	0.95[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10992424	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992450	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992457	0.94[EUR][1000 genomes]
rs13284106	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13286566	0.94[EUR][1000 genomes]
rs2094281	0.91[CEU][hapmap]
rs2181585	0.87[CEU][hapmap];1.00[CHB][hapmap];0.86[YRI][hapmap];1.00[ASN][1000 genomes]
rs2296669	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs2296671	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs41273372	1.00[ASN][1000 genomes]
rs4743875	0.95[CEU][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4743876	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744137	0.92[CEU][hapmap]
rs4744138	0.87[CEU][hapmap]
rs4744141	0.91[CEU][hapmap]
rs4744143	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6479431	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7020104	0.95[CEU][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7043984	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs7046335	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs724102	0.91[CEU][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73520580	1.00[ASN][1000 genomes]
rs755209	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7852698	0.95[CEU][hapmap];0.93[YRI][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7864575	0.91[CEU][hapmap]
rs7865019	0.91[CEU][hapmap]
rs7865118	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7869521	0.96[CEU][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[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	esv999632	chr9:95483885-95491267	Genic enhancers Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10491804	CENPP	cis	Muscle Skeletal	GTEx
rs10491804	CENPP	cis	Esophagus Muscularis	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95471000-95493000	Strong transcription	Thymus	Thymus
2	chr9:95471400-95489000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr9:95471600-95489000	Strong transcription	Fetal Stomach	stomach
4	chr9:95471800-95487600	Strong transcription	Stomach Smooth Muscle	stomach
5	chr9:95471800-95492400	Strong transcription	Dnd41	blood
6	chr9:95472000-95489600	Strong transcription	Fetal Intestine Small	intestine
7	chr9:95475000-95491600	Strong transcription	Primary T cells from cord blood	blood
8	chr9:95475000-95492200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr9:95475600-95491800	Strong transcription	Primary T helper cells PMA-I stimulated	--
10	chr9:95475600-95492000	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr9:95475600-95499200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr9:95475800-95492000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr9:95475800-95492200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr9:95476000-95489200	Strong transcription	Primary hematopoietic stem cells	blood
15	chr9:95476400-95489000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr9:95476400-95489400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:95476600-95489000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr9:95478600-95489200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:95478600-95490400	Genic enhancers	Primary B cells from peripheral blood	blood
20	chr9:95479200-95498200	Weak transcription	Stomach Mucosa	stomach
21	chr9:95479400-95491600	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr9:95479400-95492600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr9:95480000-95489400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr9:95482600-95497800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr9:95482600-95498600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr9:95482800-95499400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr9:95483200-95490600	Weak transcription	Small Intestine	intestine
28	chr9:95483400-95497800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr9:95483800-95490200	Weak transcription	Fetal Kidney	kidney
30	chr9:95484000-95491600	Weak transcription	Fetal Heart	heart
31	chr9:95484200-95488800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr9:95484200-95498000	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr9:95484400-95487800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr9:95484400-95489200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr9:95484400-95490800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr9:95484600-95487600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr9:95484600-95490400	Weak transcription	Hela-S3	cervix
38	chr9:95484600-95499400	Weak transcription	Osteobl	bone
39	chr9:95484800-95489200	Weak transcription	HSMMtube	muscle
40	chr9:95484800-95491800	Weak transcription	Fetal Brain Male	brain
41	chr9:95484800-95501800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr9:95485000-95487600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr9:95485000-95487600	Weak transcription	Fetal Lung	lung
44	chr9:95485000-95488000	Genic enhancers	Brain Inferior Temporal Lobe	brain
45	chr9:95485000-95488400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr9:95485000-95489000	Weak transcription	HSMM	muscle
47	chr9:95485000-95489200	Weak transcription	Colon Smooth Muscle	Colon
48	chr9:95485000-95489400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:95485000-95491200	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr9:95485200-95487800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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