Variant report

Variant	rs17760820
Chromosome Location	chr9:26886791-26886792
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:26886474..26888568-chr9:26890678..26892880,3	MCF-7	breast:
2	chr9:26886311..26888299-chr9:26891061..26892871,2	K562	blood:
3	chr9:26886338..26888156-chr9:26890310..26892766,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120159	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1011358	0.90[ASN][1000 genomes]
rs10511796	0.89[CHB][hapmap]
rs10812480	0.84[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.83[ASN][1000 genomes]
rs10812485	0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10812490	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10812491	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10812494	1.00[CEU][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10812495	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10812502	0.82[AMR][1000 genomes]
rs10812505	0.82[MEX][hapmap];1.00[TSI][hapmap]
rs10812509	0.84[JPT][hapmap]
rs10812510	0.80[JPT][hapmap]
rs10812517	0.80[JPT][hapmap]
rs10967541	1.00[MEX][hapmap]
rs10967545	0.90[EUR][1000 genomes]
rs10967550	0.83[ASN][1000 genomes]
rs10967560	0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs10967565	0.84[ASN][1000 genomes]
rs10967566	0.89[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.84[MKK][hapmap];0.84[ASN][1000 genomes]
rs10967581	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10967586	0.90[CHB][hapmap]
rs10967597	1.00[CEU][hapmap];0.80[JPT][hapmap];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10967602	0.81[AMR][1000 genomes]
rs10967611	1.00[MEX][hapmap];0.82[AMR][1000 genomes]
rs10967612	0.80[AMR][1000 genomes]
rs10967614	0.82[AMR][1000 genomes]
rs10967621	0.86[AMR][1000 genomes]
rs10967622	0.82[AMR][1000 genomes]
rs10967623	0.81[AMR][1000 genomes]
rs10967627	0.80[JPT][hapmap];0.82[AMR][1000 genomes]
rs10967630	0.80[JPT][hapmap];0.82[AMR][1000 genomes]
rs10967633	0.80[JPT][hapmap]
rs10967635	1.00[ASW][hapmap];0.80[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes]
rs10967649	1.00[ASW][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10967681	1.00[YRI][hapmap]
rs12236404	0.82[AMR][1000 genomes]
rs12236850	1.00[MEX][hapmap]
rs12237867	0.82[AMR][1000 genomes]
rs12238035	0.90[EUR][1000 genomes]
rs12238317	0.88[ASN][1000 genomes]
rs1336337	0.88[CHB][hapmap];0.84[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1414798	0.90[EUR][1000 genomes]
rs17760657	0.83[ASN][1000 genomes]
rs17833941	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2184738	1.00[CEU][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2184739	0.85[ASN][1000 genomes]
rs3737226	0.85[CHB][hapmap];0.85[JPT][hapmap];0.80[AMR][1000 genomes]
rs3739544	0.80[JPT][hapmap];0.81[AMR][1000 genomes]
rs3739547	1.00[CEU][hapmap];0.89[CHB][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3739548	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3739550	0.90[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4316229	0.88[ASN][1000 genomes]
rs55827505	0.82[AMR][1000 genomes]
rs55860736	0.82[AMR][1000 genomes]
rs55870543	0.82[AMR][1000 genomes]
rs57450012	0.82[AMR][1000 genomes]
rs7018943	0.95[CHB][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.92[ASN][1000 genomes]
rs7019034	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7019075	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7031903	0.81[AMR][1000 genomes]
rs7031984	0.82[AMR][1000 genomes]
rs7035447	0.80[JPT][hapmap];1.00[MEX][hapmap]
rs7045339	0.84[CHB][hapmap]
rs72719536	0.82[AMR][1000 genomes]
rs72719538	0.86[AMR][1000 genomes]
rs7857447	0.80[JPT][hapmap]
rs7857466	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7857990	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7865952	0.82[AMR][1000 genomes]
rs7869798	0.89[CHB][hapmap];1.00[YRI][hapmap]
rs7871868	0.87[ASN][1000 genomes]
rs7872666	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7873073	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7874940	0.80[JPT][hapmap];0.82[AMR][1000 genomes]
rs7875171	0.80[JPT][hapmap];0.82[AMR][1000 genomes]
rs9644870	1.00[MEX][hapmap]

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	nsv1026827	chr9:26693515-26904699	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26822200-26889400	Weak transcription	Psoas Muscle	Psoas
2	chr9:26834200-26888200	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr9:26834200-26891200	Weak transcription	NHDF-Ad	bronchial
4	chr9:26836600-26891400	Weak transcription	Brain Substantia Nigra	brain
5	chr9:26851400-26888000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr9:26851800-26888600	Weak transcription	Fetal Heart	heart
7	chr9:26851800-26891600	Weak transcription	Stomach Mucosa	stomach
8	chr9:26852400-26888000	Weak transcription	NHLF	lung
9	chr9:26855800-26888200	Weak transcription	NH-A	brain
10	chr9:26856600-26888400	Weak transcription	Osteobl	bone
11	chr9:26857600-26891000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr9:26859800-26890000	Weak transcription	Colon Smooth Muscle	Colon
13	chr9:26875800-26887400	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr9:26876800-26887400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr9:26876800-26888400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr9:26878000-26887400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:26878200-26888600	Strong transcription	Rectal Mucosa Donor 29	rectum
18	chr9:26880200-26887600	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr9:26880600-26888200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr9:26882600-26891000	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr9:26882800-26887200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr9:26882800-26888000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr9:26882800-26888000	Strong transcription	Dnd41	blood
24	chr9:26882800-26888200	Weak transcription	HUVEC	blood vessel
25	chr9:26882800-26890000	Weak transcription	Left Ventricle	heart
26	chr9:26882800-26890800	Weak transcription	HMEC	breast
27	chr9:26882800-26891000	Weak transcription	Aorta	Aorta
28	chr9:26882800-26891200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr9:26882800-26891400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr9:26882800-26891600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr9:26882800-26891800	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr9:26882800-26892000	Weak transcription	Lung	lung
33	chr9:26883000-26887000	Strong transcription	Primary B cells from cord blood	blood
34	chr9:26883000-26887600	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr9:26883000-26889400	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr9:26883000-26891600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr9:26883000-26891600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr9:26883000-26891600	Weak transcription	Small Intestine	intestine
39	chr9:26883200-26887000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr9:26883200-26888000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr9:26883200-26888200	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr9:26883200-26888400	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr9:26883200-26891000	Weak transcription	Brain Cingulate Gyrus	brain
44	chr9:26883200-26892200	Weak transcription	Spleen	Spleen
45	chr9:26883400-26887000	Strong transcription	Hela-S3	cervix
46	chr9:26883400-26888200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr9:26883400-26888200	Weak transcription	Primary T cells from cord blood	blood
48	chr9:26883400-26888200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr9:26883400-26889000	Weak transcription	Pancreas	Pancrea
50	chr9:26883400-26889200	Weak transcription	Fetal Intestine Small	intestine

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