Variant report

Variant	rs58653026
Chromosome Location	chr9:100958274-100958275
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:100955842-100958371	K562	blood:	n/a	n/a
2	POLR2A	chr9:100958067-100958821	U87	brain:	n/a	n/a
3	POLR2A	chr9:100958248-100958815	U87	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100952199..100954695-chr9:100957518..100959122,2	K562	blood:
2	chr9:100817834..100821135-chr9:100954026..100958556,6	MCF-7	breast:

Variant related genes	Relation type
CORO2A	TF binding region
ENSG00000095380	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12001270	0.92[EUR][1000 genomes]
rs12344498	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12344678	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12349129	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12349172	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16913609	0.94[EUR][1000 genomes]
rs28635946	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55710345	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56350443	0.92[EUR][1000 genomes]
rs56675709	0.92[EUR][1000 genomes]
rs57756870	0.92[EUR][1000 genomes]
rs57761120	0.94[EUR][1000 genomes]
rs58302299	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58762276	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs60887768	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7033797	0.94[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs73498781	0.92[EUR][1000 genomes]
rs73498784	0.92[EUR][1000 genomes]
rs73503038	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73657117	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053729	chr9:100909554-100997718	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv520067	chr9:100927161-100978542	Genic enhancers Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv831663	chr9:100941048-101109492	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1045780	chr9:100943318-101080389	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv540180	chr9:100943318-101080389	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100955800-100958400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:100955800-100960200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr9:100955800-100960400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr9:100955800-100960600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr9:100955800-100960600	Weak transcription	Gastric	stomach
6	chr9:100955800-100960800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr9:100955800-100961000	Weak transcription	HSMMtube	muscle
8	chr9:100955800-100961400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:100955800-100961400	Weak transcription	Brain Substantia Nigra	brain
10	chr9:100955800-100961400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr9:100955800-100961400	Weak transcription	Thymus	Thymus
12	chr9:100955800-100961600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:100955800-100961600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr9:100955800-100962000	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr9:100955800-100962000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr9:100955800-100962000	Weak transcription	HSMM	muscle
17	chr9:100955800-100964200	Weak transcription	Pancreas	Pancrea
18	chr9:100955800-100965200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:100955800-100965200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr9:100955800-100970400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr9:100955800-100970400	Weak transcription	Left Ventricle	heart
22	chr9:100955800-100970400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr9:100955800-100970600	Weak transcription	Ovary	ovary
24	chr9:100955800-100970600	Weak transcription	Right Ventricle	heart
25	chr9:100955800-100975000	Weak transcription	Primary B cells from cord blood	blood
26	chr9:100955800-100975000	Weak transcription	NHDF-Ad	bronchial
27	chr9:100955800-100975200	Weak transcription	NH-A	brain
28	chr9:100955800-100975600	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr9:100955800-101003200	Weak transcription	Primary hematopoietic stem cells	blood
30	chr9:100956000-100958600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr9:100956000-100959200	Weak transcription	HMEC	breast
32	chr9:100956000-100959600	Weak transcription	Osteobl	bone
33	chr9:100956000-100959800	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr9:100956000-100960000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr9:100956000-100960200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr9:100956000-100960400	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr9:100956000-100960600	Weak transcription	Brain Cingulate Gyrus	brain
38	chr9:100956000-100960600	Weak transcription	Colonic Mucosa	Colon
39	chr9:100956000-100961000	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr9:100956000-100961200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr9:100956000-100961400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr9:100956000-100961400	Weak transcription	Duodenum Mucosa	Duodenum
43	chr9:100956000-100961400	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr9:100956000-100961600	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr9:100956000-100961600	Weak transcription	NHLF	lung
46	chr9:100956000-100962000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr9:100956000-100965000	Weak transcription	Adipose Nuclei	Adipose
48	chr9:100956000-100969800	Weak transcription	Primary T cells from cord blood	blood
49	chr9:100956000-100970000	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr9:100956000-100970600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links