Variant report

Variant	rs10981793
Chromosome Location	chr9:116238296-116238297
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:116237263..116240200-chr9:116248821..116251142,2	MCF-7	breast:
2	chr9:116236389..116238699-chr9:116416514..116418989,2	MCF-7	breast:
3	chr9:116236980..116238854-chr9:116240606..116242641,2	K562	blood:
4	chr9:116225887..116227489-chr9:116237624..116240231,2	MCF-7	breast:
5	chr9:116237410..116240244-chr9:116241826..116244772,3	MCF-7	breast:
6	chr9:116232067..116233798-chr9:116237572..116239655,2	MCF-7	breast:
7	chr9:116228123..116231108-chr9:116235617..116238973,4	MCF-7	breast:
8	chr9:116236185..116238480-chr9:116240253..116242106,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000138835	Chromatin interaction

Extended variants
information (count: 188 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:186)

rs_ID	r²[population]
rs10125960	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs10217237	0.97[AFR][1000 genomes]
rs10217750	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs10217756	0.97[AFR][1000 genomes]
rs10481640	0.97[AFR][1000 genomes]
rs10481676	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs10481677	0.87[AFR][1000 genomes]
rs10981794	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10981803	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10981807	0.90[AFR][1000 genomes]
rs10981808	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs10981814	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs10981815	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10981816	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs10981817	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs10981819	0.94[YRI][hapmap];0.91[AFR][1000 genomes]
rs10981820	0.90[AFR][1000 genomes]
rs10981821	0.90[AFR][1000 genomes]
rs10981825	0.89[AFR][1000 genomes]
rs10981826	0.89[AFR][1000 genomes]
rs10981827	0.89[AFR][1000 genomes]
rs10981830	0.84[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs10981832	0.83[AFR][1000 genomes]
rs10981834	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10981835	0.94[CEU][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12335991	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs12336719	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs12337340	0.94[YRI][hapmap];0.86[AFR][1000 genomes]
rs12338221	0.96[AFR][1000 genomes]
rs12338588	0.90[AFR][1000 genomes]
rs12338697	0.94[YRI][hapmap];0.86[AFR][1000 genomes]
rs12338701	0.94[YRI][hapmap];0.86[AFR][1000 genomes]
rs12338788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12339493	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs12339617	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs12339851	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs12340996	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs12341332	0.94[YRI][hapmap];0.85[AFR][1000 genomes]
rs12342508	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs12342699	0.82[YRI][hapmap];0.90[AFR][1000 genomes]
rs12343129	0.94[YRI][hapmap];0.85[AFR][1000 genomes]
rs12343141	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12344334	0.89[AFR][1000 genomes]
rs12344578	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12344964	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs12345524	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12346076	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12346087	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs12346939	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs12347382	0.96[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12347895	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs12351728	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17525042	1.00[ASN][1000 genomes]
rs17553698	1.00[ASN][1000 genomes]
rs1890992	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs2050865	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2050866	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs28694002	0.90[AFR][1000 genomes]
rs28709996	0.97[AFR][1000 genomes]
rs28714985	0.90[AFR][1000 genomes]
rs34106027	1.00[ASN][1000 genomes]
rs34142167	1.00[ASN][1000 genomes]
rs35120599	1.00[ASN][1000 genomes]
rs35270441	0.94[AFR][1000 genomes]
rs35329679	1.00[ASN][1000 genomes]
rs3747813	1.00[CHB][hapmap]
rs3761819	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs3810925	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs3810926	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs3827674	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs3983381	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs41276809	1.00[ASN][1000 genomes]
rs41301525	0.87[AFR][1000 genomes]
rs41305473	0.87[AFR][1000 genomes]
rs41312200	1.00[ASN][1000 genomes]
rs41316948	1.00[ASN][1000 genomes]
rs4596719	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs4979257	0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs55676913	0.97[AFR][1000 genomes]
rs55714377	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55777057	0.89[AFR][1000 genomes]
rs55931715	0.89[AFR][1000 genomes]
rs55977108	0.90[AFR][1000 genomes]
rs56155263	0.87[AFR][1000 genomes]
rs56276438	0.89[AFR][1000 genomes]
rs56390346	0.89[AFR][1000 genomes]
rs6478011	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs6478016	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs6478017	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs6478022	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs6478023	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs7018783	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs7020623	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7021491	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7023661	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7024445	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs7024612	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs7024996	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs7025170	0.89[AFR][1000 genomes]
rs7025745	0.90[AFR][1000 genomes]
rs7026568	0.94[AFR][1000 genomes]
rs7026656	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs7027024	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs7027340	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7028327	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7029685	0.90[AFR][1000 genomes]
rs7033679	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7037441	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7037761	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7040031	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7040635	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7041833	0.85[YRI][hapmap]
rs7042290	0.97[AFR][1000 genomes]
rs7042695	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7042968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7043140	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs7045347	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7046202	0.97[AFR][1000 genomes]
rs7046427	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7047062	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs7049221	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72760096	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72761903	0.93[AFR][1000 genomes]
rs72761905	0.97[AFR][1000 genomes]
rs72761906	0.96[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72761963	0.96[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72761964	0.97[AFR][1000 genomes]
rs72761965	0.97[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72761966	0.94[AFR][1000 genomes]
rs72761969	0.97[AFR][1000 genomes]
rs72761971	0.97[AFR][1000 genomes]
rs72761973	0.97[AFR][1000 genomes]
rs72761978	0.97[AFR][1000 genomes]
rs72761987	0.94[AFR][1000 genomes]
rs72761992	0.90[AFR][1000 genomes]
rs72761994	0.90[AFR][1000 genomes]
rs72761999	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72762002	0.90[AFR][1000 genomes]
rs72763803	0.89[AFR][1000 genomes]
rs72763804	0.90[AFR][1000 genomes]
rs72763826	0.87[AFR][1000 genomes]
rs72763828	0.86[AFR][1000 genomes]
rs72763831	0.87[AFR][1000 genomes]
rs72763841	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72763842	0.87[AFR][1000 genomes]
rs72763846	0.86[AFR][1000 genomes]
rs72763857	0.82[EUR][1000 genomes]
rs7848203	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7849841	0.97[AFR][1000 genomes]
rs7851718	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs7851937	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7852118	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7853373	0.90[AFR][1000 genomes]
rs7853792	0.89[YRI][hapmap];0.91[AFR][1000 genomes]
rs7854197	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs7854524	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7855325	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7855434	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7856689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857217	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7857943	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs7860673	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7861248	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7863159	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs7864467	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7864645	0.97[AFR][1000 genomes]
rs7864816	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7867203	0.86[AFR][1000 genomes]
rs7867353	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs7870142	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7870227	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs7870265	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs7870451	0.95[YRI][hapmap]
rs7870912	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7871186	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs7872283	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs883025	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs884898	0.83[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs884899	0.86[AFR][1000 genomes]
rs9299215	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs944345	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs944346	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs9657641	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs9657658	0.89[YRI][hapmap];0.85[AFR][1000 genomes]
rs9657659	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs9785299	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv893747	chr9:116214058-116386438	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116219400-116240000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr9:116226600-116241400	Weak transcription	Lung	lung
3	chr9:116226800-116241400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr9:116227400-116263800	Weak transcription	Colonic Mucosa	Colon
5	chr9:116228400-116241400	Weak transcription	Fetal Thymus	thymus
6	chr9:116228400-116245000	Weak transcription	Fetal Intestine Large	intestine
7	chr9:116228600-116241400	Weak transcription	Duodenum Mucosa	Duodenum
8	chr9:116231600-116241400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:116231600-116241400	Weak transcription	Esophagus	oesophagus
10	chr9:116231600-116241400	Weak transcription	Gastric	stomach
11	chr9:116231600-116249800	Weak transcription	Hela-S3	cervix
12	chr9:116231800-116243000	Weak transcription	A549	lung
13	chr9:116231800-116246600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr9:116232400-116238400	Weak transcription	Pancreas	Pancrea
15	chr9:116232400-116239800	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr9:116234000-116241400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr9:116234200-116239000	Weak transcription	Stomach Mucosa	stomach
18	chr9:116234200-116241400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr9:116234200-116241600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:116234800-116243000	Enhancers	Fetal Heart	heart
21	chr9:116235000-116251200	Weak transcription	Primary hematopoietic stem cells	blood
22	chr9:116236200-116240200	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr9:116236200-116252400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr9:116236600-116241000	Weak transcription	HepG2	liver
25	chr9:116237000-116246200	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr9:116237200-116239200	Weak transcription	Aorta	Aorta
27	chr9:116237600-116238400	Weak transcription	Psoas Muscle	Psoas
28	chr9:116237600-116238400	Weak transcription	Right Ventricle	heart
29	chr9:116237600-116238600	Weak transcription	Right Atrium	heart
30	chr9:116237600-116238600	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr9:116237600-116238800	Weak transcription	Left Ventricle	heart
32	chr9:116237600-116241200	Weak transcription	Adipose Nuclei	Adipose
33	chr9:116237600-116241400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr9:116237600-116241400	Weak transcription	Placenta	Placenta
35	chr9:116237600-116244800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr9:116237800-116238400	Weak transcription	Stomach Smooth Muscle	stomach
37	chr9:116237800-116243000	Weak transcription	Fetal Stomach	stomach
38	chr9:116238000-116240000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr9:116238200-116240200	Strong transcription	Fetal Intestine Small	intestine

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