Variant report

Variant	rs58575546
Chromosome Location	chr9:98610901-98610902
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98601662..98603295-chr9:98609133..98611273,2	K562	blood:
2	chr9:98610483..98612761-chr9:98615840..98617513,2	MCF-7	breast:
3	chr9:98609508..98612574-chr9:98635513..98638199,3	MCF-7	breast:
4	chr9:98594554..98597338-chr9:98610214..98612721,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182150	Chromatin interaction
ENSG00000175611	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs59245543	1.00[AMR][1000 genomes]
rs59375678	1.00[AMR][1000 genomes]
rs73536562	1.00[AMR][1000 genomes]
rs73654593	1.00[AMR][1000 genomes]
rs73654829	1.00[AMR][1000 genomes]
rs73656538	1.00[AMR][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	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98594000-98611000	Weak transcription	Colonic Mucosa	Colon
2	chr9:98596200-98616400	Weak transcription	Fetal Brain Female	brain
3	chr9:98596200-98619200	Weak transcription	Fetal Heart	heart
4	chr9:98596400-98619400	Weak transcription	Right Ventricle	heart
5	chr9:98599200-98614400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:98602000-98632800	Weak transcription	Left Ventricle	heart
7	chr9:98602000-98636000	Weak transcription	Lung	lung
8	chr9:98602400-98619400	Weak transcription	Stomach Smooth Muscle	stomach
9	chr9:98602600-98618800	Weak transcription	Fetal Muscle Leg	muscle
10	chr9:98602600-98619400	Weak transcription	Psoas Muscle	Psoas
11	chr9:98602600-98620200	Weak transcription	Small Intestine	intestine
12	chr9:98602800-98614400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr9:98602800-98619000	Weak transcription	Ovary	ovary
14	chr9:98603200-98611200	Weak transcription	Liver	Liver
15	chr9:98604400-98621200	Weak transcription	Primary T cells from cord blood	blood
16	chr9:98607400-98612000	Weak transcription	Fetal Intestine Large	intestine
17	chr9:98607400-98621600	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr9:98608000-98614200	Weak transcription	NHLF	lung
19	chr9:98608200-98614400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:98608400-98614200	Weak transcription	Brain Substantia Nigra	brain
21	chr9:98608600-98614200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr9:98609000-98611800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr9:98609000-98614200	Weak transcription	Brain Hippocampus Middle	brain
24	chr9:98609000-98614800	Weak transcription	Primary B cells from peripheral blood	blood
25	chr9:98609000-98615600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr9:98609000-98616600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr9:98609000-98617200	Weak transcription	Spleen	Spleen
28	chr9:98609000-98619400	Weak transcription	Fetal Muscle Trunk	muscle
29	chr9:98609400-98612000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr9:98609800-98614200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr9:98610000-98611400	ZNF genes & repeats	Fetal Intestine Small	intestine
32	chr9:98610000-98612000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr9:98610200-98611400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr9:98610200-98611800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:98610200-98611800	Strong transcription	Fetal Lung	lung
36	chr9:98610200-98614000	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr9:98610200-98636200	Weak transcription	Brain Germinal Matrix	brain
38	chr9:98610200-98636800	Weak transcription	Gastric	stomach
39	chr9:98610400-98618800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr9:98610600-98611600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr9:98610600-98612400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr9:98610600-98614000	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr9:98610600-98614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr9:98610600-98616400	Weak transcription	Fetal Stomach	stomach
45	chr9:98610600-98618200	Weak transcription	Thymus	Thymus
46	chr9:98610600-98618800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr9:98610600-98619400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr9:98610800-98614400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr9:98610800-98614400	Weak transcription	Brain Inferior Temporal Lobe	brain

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