Variant report

Variant	rs62564363
Chromosome Location	chr9:94898960-94898961
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:94897533..94900717-chr9:94902765..94904749,3	MCF-7	breast:
2	chr9:94897363..94901349-chr9:95056061..95059787,4	K562	blood:
3	chr9:94898446..94901351-chr9:94903571..94905297,4	K562	blood:
4	chr9:94898906..94903668-chr9:95086648..95090271,5	MCF-7	breast:
5	chr9:94896533..94899071-chr9:94912382..94914127,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188312	Chromatin interaction
ENSG00000225511	Chromatin interaction
ENSG00000198000	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10992240	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10992241	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10992250	0.93[ASN][1000 genomes]
rs1970119	0.80[ASN][1000 genomes]
rs2398673	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35121804	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35814773	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3858094	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4391487	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55667598	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55801573	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56319302	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62564361	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62564364	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62568696	0.89[EUR][1000 genomes]
rs62568697	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62568698	0.80[EUR][1000 genomes]
rs72748370	0.93[ASN][1000 genomes]
rs7465866	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv1050845	chr9:94687959-95312406	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv1046733	chr9:94690622-95138564	Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv530947	chr9:94697309-95093377	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv917089	chr9:94857047-95099848	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active 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	45 gene(s)	inside rSNPs	diseases
6	nsv969760	chr9:94877924-94966209	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv893572	chr9:94891778-94944778	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94895000-94900200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:94896400-94902400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr9:94896600-94899800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr9:94896600-94902400	Weak transcription	Spleen	Spleen
5	chr9:94896600-94902800	Weak transcription	Gastric	stomach
6	chr9:94896800-94899000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr9:94896800-94900200	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr9:94896800-94900200	Weak transcription	Primary B cells from peripheral blood	blood
9	chr9:94896800-94900200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr9:94896800-94900200	Weak transcription	Brain Hippocampus Middle	brain
11	chr9:94896800-94900800	Weak transcription	HSMMtube	muscle
12	chr9:94896800-94902600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr9:94896800-94902800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr9:94896800-94902800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr9:94896800-94902800	Weak transcription	Esophagus	oesophagus
16	chr9:94896800-94902800	Weak transcription	Right Atrium	heart
17	chr9:94896800-94902800	Weak transcription	A549	lung
18	chr9:94897000-94900800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr9:94897200-94900200	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr9:94897200-94901400	Weak transcription	NHLF	lung
21	chr9:94897200-94902400	Weak transcription	Ovary	ovary
22	chr9:94897200-94902800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:94897200-94902800	Weak transcription	HUVEC	blood vessel
24	chr9:94897400-94899000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:94897400-94902400	Weak transcription	Osteobl	bone
26	chr9:94897400-94902800	Weak transcription	NHDF-Ad	bronchial
27	chr9:94897600-94899000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr9:94897600-94900400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr9:94897600-94902400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr9:94897600-94902800	Weak transcription	HMEC	breast
31	chr9:94898000-94900200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr9:94898200-94899400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr9:94898200-94900000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:94898200-94900200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links