Variant report

Variant	rs9304338
Chromosome Location	chr18:44524764-44524765
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:44497069..44499203-chr18:44524229..44526403,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167216	Chromatin interaction
ENSG00000078043	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10853544	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10853545	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10853547	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11082562	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11660085	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12386118	0.90[ASN][1000 genomes]
rs1539878	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1789152	0.91[EUR][1000 genomes]
rs1893427	0.91[EUR][1000 genomes]
rs1970668	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2010834	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2032215	0.89[EUR][1000 genomes]
rs2051292	0.86[EUR][1000 genomes]
rs2156050	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2187090	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2187091	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2187092	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2571024	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2571026	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2576050	0.81[ASN][1000 genomes]
rs2576051	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3744863	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3892820	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4258717	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs4890341	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4890342	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4890343	0.90[ASN][1000 genomes]
rs4890347	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4890699	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4890700	0.90[ASN][1000 genomes]
rs4890703	0.94[EUR][1000 genomes]
rs4890707	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs509647	0.80[EUR][1000 genomes]
rs553456	0.83[EUR][1000 genomes]
rs577200	0.86[EUR][1000 genomes]
rs605487	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs607780	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs626217	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs642897	0.85[EUR][1000 genomes]
rs649076	0.88[EUR][1000 genomes]
rs6507709	0.90[EUR][1000 genomes]
rs6507714	0.94[EUR][1000 genomes]
rs658756	0.91[EUR][1000 genomes]
rs695001	0.86[EUR][1000 genomes]
rs7227700	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7234570	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs7240239	0.88[EUR][1000 genomes]
rs7244013	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7244778	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7245049	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8089938	0.86[EUR][1000 genomes]
rs8091984	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8094654	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs8095373	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8096263	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9304337	0.88[EUR][1000 genomes]
rs9304339	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9304340	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9945443	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9947131	0.93[ASN][1000 genomes]
rs9959877	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9960463	0.81[AMR][1000 genomes]
rs9962523	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9966646	0.93[ASN][1000 genomes]
rs998819	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9629	chr18:44264693-44757511	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv833639	chr18:44426363-44552719	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv576813	chr18:44481641-44531283	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1057629	chr18:44500259-44539223	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1062444	chr18:44503472-44539223	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv1062682	chr18:44509052-44539223	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv1056744	chr18:44509052-44581752	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv909609	chr18:44513071-44597092	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
9	esv1818108	chr18:44519357-44549177	Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:44519800-44525400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr18:44520000-44526200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr18:44520200-44525400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr18:44520200-44526200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr18:44520200-44526800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr18:44520400-44526000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr18:44520400-44526200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr18:44520400-44526200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr18:44520400-44526200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr18:44520400-44526400	Weak transcription	Osteobl	bone
11	chr18:44520800-44526400	Weak transcription	NHDF-Ad	bronchial
12	chr18:44520800-44526400	Weak transcription	NHLF	lung
13	chr18:44521000-44526200	Weak transcription	Fetal Muscle Leg	muscle
14	chr18:44521000-44526400	Weak transcription	Psoas Muscle	Psoas
15	chr18:44521000-44526400	Weak transcription	HSMMtube	muscle
16	chr18:44523200-44526400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr18:44524000-44526200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links