Variant report

Variant	rs9826355
Chromosome Location	chr3:119665573-119665574
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:119662709..119665581-chr3:119665685..119667851,2	MCF-7	breast:
2	chr3:119659377..119662242-chr3:119664934..119667462,2	MCF-7	breast:
3	chr3:119623117..119624885-chr3:119665357..119667174,2	MCF-7	breast:
4	chr3:119664595..119667160-chr3:119811953..119814918,2	K562	blood:

Variant related genes	Relation type
ENSG00000242622	Chromatin interaction
ENSG00000082701	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs12330290	0.80[AFR][1000 genomes]
rs12330358	0.92[AFR][1000 genomes]
rs12330670	0.92[AFR][1000 genomes]
rs13315412	1.00[AFR][1000 genomes]
rs13316265	0.92[AFR][1000 genomes]
rs13319151	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13319559	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13319825	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13323804	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs28366921	0.84[AFR][1000 genomes]
rs28481299	0.92[AFR][1000 genomes]
rs28540006	0.92[AFR][1000 genomes]
rs28709836	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs28817295	1.00[AFR][1000 genomes]
rs6769820	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs6772172	0.87[YRI][hapmap];1.00[AFR][1000 genomes]
rs6778773	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs6796719	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7639665	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7639675	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9289137	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9289139	0.96[AFR][1000 genomes]
rs9810851	1.00[AFR][1000 genomes]
rs9816765	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9816864	1.00[AFR][1000 genomes]
rs9819836	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9825770	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9831646	1.00[YRI][hapmap]
rs9835672	1.00[AFR][1000 genomes]
rs9836177	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9836325	1.00[AFR][1000 genomes]
rs9837710	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9840111	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9841959	1.00[AFR][1000 genomes]
rs9842216	1.00[AFR][1000 genomes]
rs9842542	1.00[AFR][1000 genomes]
rs9843873	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9852118	1.00[AFR][1000 genomes]
rs9852797	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9854117	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9857139	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs9857548	1.00[AFR][1000 genomes]
rs9858471	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9861481	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9862099	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9864153	1.00[AFR][1000 genomes]
rs9869296	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs9871701	1.00[AFR][1000 genomes]
rs9871925	1.00[AFR][1000 genomes]
rs9872693	1.00[AFR][1000 genomes]
rs9874110	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9880833	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9881985	1.00[YRI][hapmap];1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv829696	chr3:119567659-119711405	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119608200-119677800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:119611200-119667000	Weak transcription	Pancreas	Pancrea
3	chr3:119611400-119682200	Weak transcription	HSMMtube	muscle
4	chr3:119625000-119668200	Weak transcription	Hela-S3	cervix
5	chr3:119629600-119672200	Weak transcription	Fetal Stomach	stomach
6	chr3:119630800-119697400	Weak transcription	Thymus	Thymus
7	chr3:119631000-119717000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:119635000-119667000	Weak transcription	Placenta	Placenta
9	chr3:119636400-119667200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr3:119640600-119672400	Weak transcription	Osteobl	bone
11	chr3:119641000-119681600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:119641000-119681600	Weak transcription	Fetal Intestine Small	intestine
13	chr3:119641000-119694400	Weak transcription	Fetal Lung	lung
14	chr3:119641200-119666400	Weak transcription	HepG2	liver
15	chr3:119641200-119681200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:119642200-119665600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr3:119645400-119669600	Weak transcription	Psoas Muscle	Psoas
18	chr3:119650200-119669800	Weak transcription	Liver	Liver
19	chr3:119650400-119669600	Weak transcription	Left Ventricle	heart
20	chr3:119653600-119669600	Weak transcription	Ovary	ovary
21	chr3:119656400-119669400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr3:119656400-119680600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:119656400-119681200	Weak transcription	Primary hematopoietic stem cells	blood
24	chr3:119656400-119700000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:119656600-119669800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:119656600-119718400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:119658000-119669800	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:119658200-119669000	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr3:119658200-119669400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr3:119658200-119669600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr3:119658400-119669400	Weak transcription	Brain Angular Gyrus	brain
32	chr3:119658400-119688400	Weak transcription	NHEK	skin
33	chr3:119658400-119688600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr3:119658800-119667000	Weak transcription	Stomach Mucosa	stomach
35	chr3:119661000-119667000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr3:119662000-119684800	Weak transcription	Rectal Smooth Muscle	rectum
37	chr3:119662400-119700400	Weak transcription	Fetal Intestine Large	intestine
38	chr3:119662600-119666000	Weak transcription	NHDF-Ad	bronchial
39	chr3:119663000-119666000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:119663200-119669600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr3:119663400-119666400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:119663600-119665800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr3:119663600-119669400	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr3:119663600-119681200	Weak transcription	Primary T cells from cord blood	blood
45	chr3:119663800-119666200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr3:119663800-119666400	Strong transcription	Dnd41	blood
47	chr3:119664000-119669600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr3:119664000-119695000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr3:119664200-119666000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr3:119664200-119666200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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