Variant report

Variant	rs796007
Chromosome Location	chr9:86577541-86577542
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	chr9:86569929..86574114-chr9:86574225..86577710,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165118	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10114889	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10115699	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10125715	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10868068	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10868070	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10868071	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10868076	0.93[ASN][1000 genomes]
rs10868080	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11140289	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13295313	0.82[EUR][1000 genomes]
rs13296528	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs167203	0.81[EUR][1000 genomes]
rs1831757	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1889113	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1982151	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2576362	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2780103	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28521174	0.82[EUR][1000 genomes]
rs296883	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs296886	0.81[EUR][1000 genomes]
rs296887	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs296888	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs296889	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs296890	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs296893	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3818725	0.84[ASN][1000 genomes]
rs4147132	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4147133	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4535826	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6559751	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6559752	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs696825	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7020300	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7033292	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7045126	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7853254	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs796003	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs796004	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469859	chr9:86398152-86587957	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv482641	chr9:86398152-86587957	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	esv2758192	chr9:86414024-86603602	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2759701	chr9:86414024-86603602	Enhancers Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv8541	chr9:86469723-86593758	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv831644	chr9:86534310-86704395	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
7	esv3366490	chr9:86541369-86608868	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
8	nsv1043703	chr9:86545917-86603545	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86571800-86584600	Weak transcription	Spleen	Spleen
2	chr9:86572000-86586200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:86572200-86579800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr9:86572200-86581000	Weak transcription	Primary T cells from cord blood	blood
5	chr9:86572200-86581000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr9:86572200-86581200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:86572200-86581600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr9:86572200-86581800	Weak transcription	Primary hematopoietic stem cells	blood
9	chr9:86572200-86581800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr9:86572200-86581800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr9:86572200-86582000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr9:86572200-86582000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr9:86572200-86584600	Weak transcription	Ovary	ovary
14	chr9:86572200-86586600	Weak transcription	Aorta	Aorta
15	chr9:86572200-86593200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr9:86572400-86580000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr9:86572400-86580600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:86572400-86580800	Weak transcription	Primary B cells from cord blood	blood
19	chr9:86572400-86581000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr9:86572400-86581000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr9:86572400-86581000	Weak transcription	Brain Germinal Matrix	brain
22	chr9:86572400-86581200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:86572400-86581200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr9:86572400-86581200	Weak transcription	Fetal Muscle Leg	muscle
25	chr9:86572400-86581200	Weak transcription	Fetal Thymus	thymus
26	chr9:86572400-86581200	Weak transcription	Left Ventricle	heart
27	chr9:86572400-86581200	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr9:86572400-86581200	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr9:86572400-86581400	Weak transcription	Primary B cells from peripheral blood	blood
30	chr9:86572400-86581400	Weak transcription	GM12878-XiMat	blood
31	chr9:86572400-86581400	Weak transcription	HUVEC	blood vessel
32	chr9:86572400-86581600	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr9:86572400-86581600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr9:86572400-86581800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr9:86572400-86581800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr9:86572400-86581800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr9:86572400-86582000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr9:86572400-86582200	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr9:86572400-86582200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr9:86572400-86582600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr9:86572400-86582600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr9:86572400-86584000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr9:86572400-86584400	Weak transcription	Fetal Heart	heart
44	chr9:86572400-86584600	Weak transcription	Thymus	Thymus
45	chr9:86572400-86585800	Weak transcription	Pancreas	Pancrea
46	chr9:86572400-86586000	Weak transcription	Gastric	stomach
47	chr9:86572400-86586000	Weak transcription	Psoas Muscle	Psoas
48	chr9:86572400-86586000	Weak transcription	Right Ventricle	heart
49	chr9:86572400-86590000	Weak transcription	Right Atrium	heart
50	chr9:86572600-86580000	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links