Variant report

Variant	rs1528364
Chromosome Location	chr9:94639829-94639830
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:94634167..94636496-chr9:94639519..94641175,2	MCF-7	breast:
2	chr9:94636703..94639887-chr9:94643001..94646217,3	K562	blood:
3	chr9:94634801..94638279-chr9:94639316..94642885,4	K562	blood:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10116962	0.83[ASN][1000 genomes]
rs10761132	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10761133	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs10761134	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs10761135	0.88[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10820906	0.86[CEU][hapmap]
rs10820910	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992123	0.84[CEU][hapmap]
rs10992124	0.87[CEU][hapmap]
rs10992126	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10992128	0.81[CEU][hapmap]
rs10992129	0.82[CEU][hapmap]
rs10992130	0.83[CEU][hapmap]
rs10992131	0.88[CEU][hapmap]
rs10992132	0.87[CEU][hapmap]
rs10992134	0.88[CEU][hapmap];0.86[JPT][hapmap]
rs10992135	0.92[CEU][hapmap]
rs10992136	0.88[CEU][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992137	0.87[CEU][hapmap]
rs10992139	0.88[CEU][hapmap]
rs10992142	0.84[CEU][hapmap]
rs10992143	0.84[CEU][hapmap]
rs10992144	0.84[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10992145	0.92[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11789730	0.83[CEU][hapmap]
rs11790144	0.81[CEU][hapmap]
rs11791450	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs12376130	0.84[CEU][hapmap]
rs12376539	0.83[CEU][hapmap]
rs12378938	0.85[CEU][hapmap];0.80[AMR][1000 genomes]
rs12551140	0.87[CEU][hapmap]
rs12552858	0.86[CEU][hapmap]
rs12555334	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs12684524	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12684533	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1528363	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1534530	0.82[EUR][1000 genomes]
rs1534533	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1881385	0.83[CEU][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1881387	0.83[CEU][hapmap]
rs1881391	0.83[JPT][hapmap]
rs1881392	0.87[CEU][hapmap]
rs2030991	0.81[EUR][1000 genomes]
rs2312732	0.92[CEU][hapmap]
rs2312734	0.87[CEU][hapmap]
rs2312735	0.83[CEU][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4322068	0.83[CEU][hapmap]
rs4743857	0.88[CEU][hapmap]
rs4744107	0.84[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap]
rs4744109	0.88[CEU][hapmap]
rs4744110	0.83[CEU][hapmap]
rs4744111	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744112	0.88[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4744113	0.81[CEU][hapmap]
rs55956910	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs58202197	0.81[EUR][1000 genomes]
rs62565675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479374	0.83[CEU][hapmap]
rs6479375	0.84[CEU][hapmap]
rs6479377	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6479387	0.83[JPT][hapmap]
rs7029950	0.83[CEU][hapmap]
rs7030661	0.88[CEU][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7031562	0.92[CEU][hapmap]
rs7033819	0.84[CEU][hapmap]
rs7039406	0.88[CEU][hapmap]
rs7045226	0.88[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7048756	0.92[CEU][hapmap]
rs7850118	0.92[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7856144	0.83[CEU][hapmap]
rs7858435	0.83[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs7859331	0.84[CEU][hapmap]
rs7863061	0.80[CEU][hapmap]
rs7864311	0.81[EUR][1000 genomes]
rs7865855	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7870049	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7874148	0.83[CEU][hapmap]

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	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	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
4	nsv530946	chr9:94633154-94715023	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94627000-94650800	Weak transcription	Gastric	stomach
2	chr9:94627200-94648600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr9:94627600-94647400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:94630400-94641400	Weak transcription	K562	blood
5	chr9:94632800-94641000	Enhancers	Colon Smooth Muscle	Colon
6	chr9:94633000-94644600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:94636200-94641800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:94636600-94642800	Weak transcription	Left Ventricle	heart
9	chr9:94636600-94646000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:94636600-94647200	Weak transcription	Fetal Intestine Large	intestine
11	chr9:94636800-94645400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr9:94637000-94640400	Weak transcription	Fetal Stomach	stomach
13	chr9:94637800-94645000	Weak transcription	Fetal Intestine Small	intestine
14	chr9:94638000-94643200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr9:94638200-94642000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr9:94638200-94643000	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr9:94638200-94643000	Weak transcription	Rectal Smooth Muscle	rectum
18	chr9:94638200-94646200	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr9:94638400-94641200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr9:94638400-94646000	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr9:94638800-94644200	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr9:94639200-94645200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr9:94639400-94641000	Strong transcription	Fetal Lung	lung
24	chr9:94639400-94641400	Weak transcription	Ovary	ovary
25	chr9:94639400-94645000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr9:94639800-94640400	Enhancers	Fetal Heart	heart
27	chr9:94639800-94644000	Weak transcription	Right Atrium	heart
28	chr9:94639800-94647400	Weak transcription	Stomach Smooth Muscle	stomach

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