Variant report

Variant	rs4592123
Chromosome Location	chr9:25676584-25676585
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:56735486..56737585-chr9:25675306..25677414,2	MCF-7	breast:
2	chr9:25418497..25420216-chr9:25675741..25678077,2	MCF-7	breast:
3	chr9:25675224..25676763-chr9:25677105..25678676,2	MCF-7	breast:
4	chr9:25517372..25520682-chr9:25675267..25678566,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000202077	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs13285063	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13285383	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13299454	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34413886	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62533390	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7023073	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7028310	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv466309	chr9:25157678-25683220	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv613889	chr9:25157678-25683220	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv869035	chr9:25287213-25779281	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv531597	chr9:25325401-25779422	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv613912	chr9:25538362-25722614	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv533233	chr9:25548163-25702906	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv831530	chr9:25563811-25754022	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1015883	chr9:25633359-26315286	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv892834	chr9:25633688-25677349	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv892835	chr9:25638009-25677349	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
11	nsv892836	chr9:25652561-25677349	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
12	esv3389885	chr9:25653001-25688182	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	esv3451258	chr9:25664001-25688182	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv824893	chr9:25667989-25682355	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:25673200-25677200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:25673800-25677200	Weak transcription	Placenta	Placenta
3	chr9:25674400-25677400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:25675200-25676600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:25675200-25677000	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr9:25675600-25676600	Weak transcription	NHDF-Ad	bronchial
7	chr9:25675600-25677000	Enhancers	Brain Germinal Matrix	brain
8	chr9:25675800-25677000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:25675800-25677000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr9:25675800-25677000	Weak transcription	Fetal Lung	lung
11	chr9:25675800-25677200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr9:25676000-25677000	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr9:25676000-25677000	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr9:25676000-25677000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr9:25676000-25677600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:25676200-25677200	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr9:25676200-25677400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr9:25676200-25678400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr9:25676200-25678800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr9:25676400-25676600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:25676400-25676600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr9:25676400-25676800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr9:25676400-25676800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr9:25676400-25676800	Enhancers	Hela-S3	cervix
25	chr9:25676400-25677000	Enhancers	Adipose Nuclei	Adipose
26	chr9:25676400-25677000	Enhancers	Fetal Brain Male	brain
27	chr9:25676400-25677000	Enhancers	Fetal Brain Female	brain
28	chr9:25676400-25677200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr9:25676400-25677400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr9:25676400-25678600	Active TSS	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links