Variant report

Variant	rs9297284
Chromosome Location	chr8:99411087-99411088
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr8:99410505..99411485-chr8:99483128..99483953,2	MCF-7	breast:
2	chr8:99397844..99400010-chr8:99411059..99412585,2	MCF-7	breast:
3	chr8:99404229..99407822-chr8:99408436..99411402,4	MCF-7	breast:
4	chr8:99410786..99412684-chr8:99420186..99422700,2	MCF-7	breast:
5	chr8:99389616..99393006-chr8:99411002..99413447,3	MCF-7	breast:
6	chr8:99304071..99306084-chr8:99410525..99412832,2	MCF-7	breast:
7	chr8:99410069..99412825-chr8:99413112..99416320,3	MCF-7	breast:
8	chr8:99407982..99409510-chr8:99409627..99412103,2	MCF-7	breast:

No data

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10098761	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10808360	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11775820	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11778073	0.94[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11783149	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12115160	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12386847	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17310732	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17370425	1.00[JPT][hapmap]
rs28756269	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4130404	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7005586	1.00[JPT][hapmap]
rs7005600	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7843191	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9297285	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9642952	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032904	chr8:98756076-99476925	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv539687	chr8:98756076-99476925	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv831406	chr8:99290745-99482076	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9297284	PABPC1	cis	parietal	SCAN

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:99395400-99415200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr8:99397000-99411600	Weak transcription	Right Ventricle	heart
3	chr8:99408600-99416600	Enhancers	Ovary	ovary
4	chr8:99408800-99414600	Weak transcription	Esophagus	oesophagus
5	chr8:99409800-99412800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr8:99409800-99415400	Enhancers	NHLF	lung
7	chr8:99410000-99411400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr8:99410000-99415600	Enhancers	Fetal Stomach	stomach
9	chr8:99410000-99416000	Enhancers	Fetal Lung	lung
10	chr8:99410200-99411600	Enhancers	HSMM	muscle
11	chr8:99410200-99412400	Enhancers	HMEC	breast
12	chr8:99410200-99412600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr8:99410200-99413600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr8:99410200-99415400	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr8:99410400-99411200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr8:99410400-99411400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr8:99410400-99412800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr8:99410400-99413600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr8:99410400-99415000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr8:99410600-99411200	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr8:99410600-99411400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
22	chr8:99410600-99411400	Flanking Active TSS	NHDF-Ad	bronchial
23	chr8:99410600-99411600	Weak transcription	Adipose Nuclei	Adipose
24	chr8:99410600-99411600	Weak transcription	Left Ventricle	heart
25	chr8:99410600-99411800	Flanking Active TSS	Osteobl	bone
26	chr8:99410600-99412200	Enhancers	A549	lung
27	chr8:99410600-99412200	Enhancers	NHEK	skin
28	chr8:99410600-99412800	Enhancers	HSMMtube	muscle
29	chr8:99410600-99415600	Enhancers	Fetal Muscle Leg	muscle
30	chr8:99410800-99411200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr8:99410800-99411200	Enhancers	Fetal Muscle Trunk	muscle
32	chr8:99410800-99411800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr8:99410800-99412200	Weak transcription	Lung	lung
34	chr8:99410800-99413800	Weak transcription	Fetal Brain Male	brain
35	chr8:99410800-99421400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr8:99411000-99412000	Weak transcription	Right Atrium	heart
37	chr8:99411000-99412000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr8:99411000-99412400	Enhancers	NH-A	brain

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