Variant report

Variant	rs28802998
Chromosome Location	chr9:94625560-94625561
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	chr9:94600991..94603811-chr9:94624286..94626763,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10512218	0.97[ASN][1000 genomes]
rs11999739	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12002460	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12002884	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12003273	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12003585	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16907830	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16907877	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907893	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907940	0.97[ASN][1000 genomes]
rs1881386	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56225147	0.97[ASN][1000 genomes]
rs59004196	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61160043	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7022887	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7031514	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7041908	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7045708	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73519115	1.00[ASN][1000 genomes]
rs73519130	0.97[ASN][1000 genomes]
rs73519140	0.97[ASN][1000 genomes]
rs73651562	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73651565	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73651566	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73651574	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651579	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651580	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651581	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651582	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651583	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651584	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73651595	0.97[ASN][1000 genomes]
rs73651596	0.97[ASN][1000 genomes]
rs7866996	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9969713	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045332	chr9:94352661-94656016	Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1047426	chr9:94363211-94758114	Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv531631	chr9:94373847-94633213	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1036176	chr9:94500213-94639367	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv540171	chr9:94500213-94639367	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	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
7	esv3487565	chr9:94622342-94626802	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv3487566	chr9:94622342-94626802	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94620800-94626400	Weak transcription	Ovary	ovary
2	chr9:94621000-94626400	Weak transcription	Fetal Heart	heart
3	chr9:94621000-94627400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:94621200-94626000	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr9:94621200-94626600	Weak transcription	Fetal Thymus	thymus
6	chr9:94621400-94626000	Weak transcription	Fetal Lung	lung
7	chr9:94621400-94626400	Weak transcription	Gastric	stomach
8	chr9:94621400-94626400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr9:94621400-94626600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr9:94621400-94626600	Weak transcription	K562	blood
11	chr9:94621400-94626800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:94621400-94627000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr9:94621400-94638000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:94622000-94626400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:94623000-94626000	Weak transcription	Fetal Stomach	stomach
16	chr9:94623000-94626400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:94623200-94626400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr9:94623200-94627000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr9:94623200-94629000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr9:94623200-94634000	Weak transcription	Fetal Intestine Small	intestine
21	chr9:94624600-94625600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr9:94625400-94625800	Enhancers	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links