Variant report

Variant	rs7870142
Chromosome Location	chr9:116269454-116269455
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116268020..116270746-chr9:116274035..116276805,2	MCF-7	breast:
2	chr9:116264785..116266447-chr9:116267104..116270067,2	MCF-7	breast:
3	chr9:116171777..116174137-chr9:116269165..116271783,2	K562	blood:
4	chr9:116261921..116264441-chr9:116267312..116269535,2	MCF-7	breast:
5	chr9:116260634..116263003-chr9:116269151..116271468,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138835	Chromatin interaction
ENSG00000148229	Chromatin interaction
ENSG00000157653	Chromatin interaction

Extended variants
information (count: 183 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:178)

rs_ID	r²[population]
rs10125960	0.91[AFR][1000 genomes]
rs10217237	0.91[AFR][1000 genomes]
rs10217750	0.91[AFR][1000 genomes]
rs10217756	0.91[AFR][1000 genomes]
rs10481640	0.91[AFR][1000 genomes]
rs10481676	0.91[AFR][1000 genomes]
rs10481677	0.82[AFR][1000 genomes]
rs10981793	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10981794	0.89[AFR][1000 genomes]
rs10981803	0.89[AFR][1000 genomes]
rs10981807	0.85[AFR][1000 genomes]
rs10981808	0.85[AFR][1000 genomes]
rs10981814	0.85[AFR][1000 genomes]
rs10981815	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10981816	0.85[AFR][1000 genomes]
rs10981817	0.85[AFR][1000 genomes]
rs10981819	0.86[AFR][1000 genomes]
rs10981820	0.85[AFR][1000 genomes]
rs10981821	0.85[AFR][1000 genomes]
rs10981825	0.83[AFR][1000 genomes]
rs10981826	0.83[AFR][1000 genomes]
rs10981827	0.83[AFR][1000 genomes]
rs10981830	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12335991	0.91[AFR][1000 genomes]
rs12336719	0.89[AFR][1000 genomes]
rs12337340	0.81[AFR][1000 genomes]
rs12338221	0.90[AFR][1000 genomes]
rs12338588	0.85[AFR][1000 genomes]
rs12338697	0.81[AFR][1000 genomes]
rs12338701	0.81[AFR][1000 genomes]
rs12338788	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12339493	0.82[AFR][1000 genomes]
rs12339617	0.86[AFR][1000 genomes]
rs12339851	0.91[AFR][1000 genomes]
rs12340996	0.89[AFR][1000 genomes]
rs12342508	0.91[AFR][1000 genomes]
rs12342699	0.84[AFR][1000 genomes]
rs12343129	0.85[AFR][1000 genomes]
rs12343141	0.85[AFR][1000 genomes]
rs12344334	0.83[AFR][1000 genomes]
rs12344578	0.85[AFR][1000 genomes]
rs12344964	0.91[AFR][1000 genomes]
rs12345524	0.85[AFR][1000 genomes]
rs12346076	0.85[AFR][1000 genomes]
rs12346087	0.82[AFR][1000 genomes]
rs12346939	0.91[AFR][1000 genomes]
rs12347382	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12347895	0.82[AFR][1000 genomes]
rs12351728	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17187621	0.83[EUR][1000 genomes]
rs17525042	0.86[ASN][1000 genomes]
rs17553698	0.86[ASN][1000 genomes]
rs1890992	0.83[AFR][1000 genomes]
rs2050865	0.89[AFR][1000 genomes]
rs2050866	0.89[AFR][1000 genomes]
rs28694002	0.85[AFR][1000 genomes]
rs28709996	0.91[AFR][1000 genomes]
rs28714985	0.85[AFR][1000 genomes]
rs34106027	0.86[ASN][1000 genomes]
rs34142167	0.86[ASN][1000 genomes]
rs35120599	0.86[ASN][1000 genomes]
rs35270441	0.89[AFR][1000 genomes]
rs35329679	0.86[ASN][1000 genomes]
rs3761819	0.86[ASN][1000 genomes]
rs3810925	0.86[ASN][1000 genomes]
rs3810926	0.86[ASN][1000 genomes]
rs3827674	0.86[ASN][1000 genomes]
rs3983381	0.83[AFR][1000 genomes]
rs41276809	0.86[ASN][1000 genomes]
rs41301525	0.82[AFR][1000 genomes]
rs41305473	0.82[AFR][1000 genomes]
rs41312200	0.86[ASN][1000 genomes]
rs41316948	0.86[ASN][1000 genomes]
rs4596719	0.89[AFR][1000 genomes]
rs55676913	0.91[AFR][1000 genomes]
rs55714377	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55777057	0.83[AFR][1000 genomes]
rs55931715	0.83[AFR][1000 genomes]
rs55977108	0.85[AFR][1000 genomes]
rs56155263	0.82[AFR][1000 genomes]
rs56276438	0.83[AFR][1000 genomes]
rs56390346	0.83[AFR][1000 genomes]
rs6478011	0.91[AFR][1000 genomes]
rs6478016	0.91[AFR][1000 genomes]
rs6478017	0.91[AFR][1000 genomes]
rs6478022	0.83[AFR][1000 genomes]
rs6478023	0.83[AFR][1000 genomes]
rs7018783	0.85[AFR][1000 genomes]
rs7020623	0.91[AFR][1000 genomes]
rs7021491	0.91[AFR][1000 genomes]
rs7023661	0.91[AFR][1000 genomes]
rs7024445	0.83[AFR][1000 genomes]
rs7024612	0.83[AFR][1000 genomes]
rs7024996	0.82[AFR][1000 genomes]
rs7025170	0.83[AFR][1000 genomes]
rs7025745	0.85[AFR][1000 genomes]
rs7026568	0.89[AFR][1000 genomes]
rs7026656	0.89[AFR][1000 genomes]
rs7027024	0.89[AFR][1000 genomes]
rs7027340	0.91[AFR][1000 genomes]
rs7028327	0.91[AFR][1000 genomes]
rs7029685	0.85[AFR][1000 genomes]
rs7033679	0.91[AFR][1000 genomes]
rs7037441	0.85[AFR][1000 genomes]
rs7037761	0.92[AFR][1000 genomes]
rs7040031	0.91[AFR][1000 genomes]
rs7040635	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7042290	0.91[AFR][1000 genomes]
rs7042695	0.85[AFR][1000 genomes]
rs7042968	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7043140	0.89[AFR][1000 genomes]
rs7045347	0.91[AFR][1000 genomes]
rs7046202	0.91[AFR][1000 genomes]
rs7046427	0.85[AFR][1000 genomes]
rs7047062	0.82[AFR][1000 genomes]
rs7049221	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs72760096	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72761903	0.87[AFR][1000 genomes]
rs72761905	0.91[AFR][1000 genomes]
rs72761906	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72761963	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72761964	0.91[AFR][1000 genomes]
rs72761965	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72761966	0.89[AFR][1000 genomes]
rs72761969	0.91[AFR][1000 genomes]
rs72761971	0.91[AFR][1000 genomes]
rs72761973	0.91[AFR][1000 genomes]
rs72761978	0.91[AFR][1000 genomes]
rs72761987	0.89[AFR][1000 genomes]
rs72761992	0.85[AFR][1000 genomes]
rs72761994	0.85[AFR][1000 genomes]
rs72761999	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs72762002	0.85[AFR][1000 genomes]
rs72763803	0.83[AFR][1000 genomes]
rs72763804	0.85[AFR][1000 genomes]
rs72763826	0.82[AFR][1000 genomes]
rs72763828	0.80[AFR][1000 genomes]
rs72763831	0.82[AFR][1000 genomes]
rs72763841	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs72763842	0.82[AFR][1000 genomes]
rs72763846	0.81[AFR][1000 genomes]
rs7848203	0.91[AFR][1000 genomes]
rs7849841	0.91[AFR][1000 genomes]
rs7851718	0.85[AFR][1000 genomes]
rs7851937	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7852118	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7853373	0.85[AFR][1000 genomes]
rs7853792	0.86[AFR][1000 genomes]
rs7854197	0.85[AFR][1000 genomes]
rs7854524	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7855325	0.85[AFR][1000 genomes]
rs7855434	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856689	0.93[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7857217	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857943	0.82[AFR][1000 genomes]
rs7860673	0.91[AFR][1000 genomes]
rs7861248	0.91[AFR][1000 genomes]
rs7863159	0.82[AFR][1000 genomes]
rs7864467	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7864645	0.91[AFR][1000 genomes]
rs7864816	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7867203	0.81[AFR][1000 genomes]
rs7867353	0.86[AFR][1000 genomes]
rs7867430	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7870227	0.85[AFR][1000 genomes]
rs7870265	0.90[AFR][1000 genomes]
rs7870912	0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7871186	0.82[AFR][1000 genomes]
rs7872283	0.91[AFR][1000 genomes]
rs883025	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs884898	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs884899	0.81[AFR][1000 genomes]
rs9299215	0.91[AFR][1000 genomes]
rs944345	0.83[AFR][1000 genomes]
rs944346	0.83[AFR][1000 genomes]
rs9657641	0.82[AFR][1000 genomes]
rs9657659	0.82[AFR][1000 genomes]
rs9785299	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
3	nsv466508	chr9:116244982-116362738	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv615215	chr9:116244982-116362738	Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv526579	chr9:116244982-116391162	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116251600-116283800	Weak transcription	Hela-S3	cervix
2	chr9:116252400-116273200	Weak transcription	Pancreas	Pancrea
3	chr9:116255600-116275800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr9:116257400-116270800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:116259200-116274000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:116259200-116274200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:116262800-116274200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr9:116264000-116291200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:116264400-116270200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:116264600-116271200	Enhancers	Liver	Liver
11	chr9:116264600-116271400	Genic enhancers	Fetal Intestine Small	intestine
12	chr9:116264800-116298400	Weak transcription	Brain Germinal Matrix	brain
13	chr9:116265000-116270000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr9:116265200-116270800	Weak transcription	Fetal Heart	heart
15	chr9:116265600-116269600	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr9:116265600-116270000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr9:116265600-116270000	Weak transcription	Fetal Kidney	kidney
18	chr9:116265600-116270000	Weak transcription	Rectal Smooth Muscle	rectum
19	chr9:116266000-116270000	Weak transcription	Esophagus	oesophagus
20	chr9:116266000-116270400	Weak transcription	GM12878-XiMat	blood
21	chr9:116266200-116269800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr9:116266400-116269600	Enhancers	Rectal Mucosa Donor 31	rectum
23	chr9:116266400-116270800	Weak transcription	NHLF	lung
24	chr9:116266600-116270200	Weak transcription	Fetal Lung	lung
25	chr9:116266600-116270400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr9:116266600-116274200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:116266800-116269600	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr9:116266800-116271200	Genic enhancers	Fetal Muscle Trunk	muscle
29	chr9:116266800-116273600	Enhancers	Right Atrium	heart
30	chr9:116266800-116281600	Strong transcription	Fetal Stomach	stomach
31	chr9:116267000-116270000	Strong transcription	Stomach Smooth Muscle	stomach
32	chr9:116267000-116272200	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr9:116267200-116270400	Weak transcription	Brain Substantia Nigra	brain
34	chr9:116267400-116269600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:116267400-116269800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr9:116267400-116269800	Strong transcription	Gastric	stomach
37	chr9:116267400-116270000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr9:116267400-116270400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr9:116267400-116270400	Strong transcription	Aorta	Aorta
40	chr9:116267400-116274800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr9:116267600-116269800	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr9:116267600-116270000	Weak transcription	Stomach Mucosa	stomach
43	chr9:116267800-116269800	Enhancers	Adipose Nuclei	Adipose
44	chr9:116267800-116270000	Strong transcription	Left Ventricle	heart
45	chr9:116267800-116270000	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr9:116267800-116270400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr9:116267800-116270600	Weak transcription	Ovary	ovary
48	chr9:116268000-116275000	Genic enhancers	HUVEC	blood vessel
49	chr9:116268200-116269600	Enhancers	H1 Cell Line	embryonic stem cell
50	chr9:116268200-116269800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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