Variant report

Variant	rs28421389
Chromosome Location	chr9:98199150-98199151
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98195671..98199206-chr9:98203414..98207469,4	K562	blood:
2	chr9:98198248..98200443-chr9:98266921..98269744,2	K562	blood:
3	chr9:98198490..98200651-chr9:98245045..98247507,2	K562	blood:
4	chr9:98197526..98199298-chr9:98270440..98272559,2	K562	blood:
5	chr9:98197509..98199344-chr9:98205458..98207531,2	MCF-7	breast:
6	chr9:98195217..98199748-chr9:98266921..98269670,5	K562	blood:
7	chr9:98199109..98200665-chr9:98217953..98219861,2	K562	blood:

Variant related genes	Relation type
ENSG00000271155	Chromatin interaction
ENSG00000185920	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs16909856	0.88[EUR][1000 genomes]
rs16909859	0.88[EUR][1000 genomes]
rs16909865	0.86[EUR][1000 genomes]
rs28485160	0.90[EUR][1000 genomes]
rs28517704	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28563972	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28615951	0.96[EUR][1000 genomes]
rs57247461	0.91[EUR][1000 genomes]
rs58831996	0.91[EUR][1000 genomes]
rs60608001	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61652825	0.81[AMR][1000 genomes];0.93[EUR][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	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1051731	chr9:98154815-98201115	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98189600-98210800	Weak transcription	Right Atrium	heart
2	chr9:98189800-98206600	Weak transcription	Pancreas	Pancrea
3	chr9:98194800-98206600	Weak transcription	Left Ventricle	heart
4	chr9:98196000-98200600	Weak transcription	Brain Germinal Matrix	brain
5	chr9:98196800-98206600	Weak transcription	Fetal Muscle Leg	muscle
6	chr9:98196800-98207000	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr9:98197000-98204000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:98197000-98204600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr9:98197000-98206600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr9:98197000-98206600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr9:98197000-98206600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr9:98197000-98207200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr9:98197200-98202800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr9:98197200-98204200	Weak transcription	Fetal Stomach	stomach
15	chr9:98197200-98204400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:98197200-98204400	Weak transcription	Fetal Intestine Large	intestine
17	chr9:98197200-98204600	Weak transcription	Fetal Lung	lung
18	chr9:98197200-98205000	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr9:98197200-98206600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr9:98197200-98206600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr9:98197200-98207000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr9:98197200-98207200	Weak transcription	Placenta	Placenta
23	chr9:98197200-98207600	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr9:98197200-98208800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr9:98197400-98199800	Weak transcription	HepG2	liver
26	chr9:98197400-98205000	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr9:98197800-98202800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr9:98197800-98204800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:98197800-98209400	Weak transcription	Fetal Heart	heart
30	chr9:98198000-98206600	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:98198000-98207200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr9:98198000-98207200	Weak transcription	Brain Substantia Nigra	brain
33	chr9:98198000-98207400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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