Variant report

Variant	rs8115
Chromosome Location	chr9:96941577-96941578
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96941289..96943045-chr9:96974462..96976408,2	K562	blood:
2	chr9:96892621..96894376-chr9:96941518..96944300,2	K562	blood:
3	chr9:96791676..96794493-chr9:96936767..96941836,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTPDC1-7	chr9:96941226-96941730	NONHSAT133286

Variant related genes	Relation type
ENSG00000158079	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10115278	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117272	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117305	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10122644	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821307	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821312	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]
rs10821315	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993093	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12342389	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12345620	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12377837	1.00[CHB][hapmap]
rs12378444	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2080658	1.00[CHB][hapmap]
rs4744321	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744324	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744326	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479530	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67631527	0.86[ASN][1000 genomes]
rs7025626	1.00[CHB][hapmap]
rs7038156	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7865658	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv482457	chr9:96813852-96996170	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	217 gene(s)	inside rSNPs	diseases
2	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases
3	esv3394266	chr9:96935210-97045514	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	195 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96929800-96944800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:96929800-96948400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:96930600-96943600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr9:96930600-96943800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr9:96931400-96965600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr9:96934000-96941800	Strong transcription	Dnd41	blood
7	chr9:96934400-96942400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr9:96935400-96942200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:96935400-96942400	Strong transcription	Fetal Thymus	thymus
10	chr9:96935600-96942400	Strong transcription	HUES6 Cell Line	embryonic stem cell
11	chr9:96935600-96942400	Genic enhancers	HepG2	liver
12	chr9:96935800-96942400	Strong transcription	Cortex derived primary cultured neurospheres	brain
13	chr9:96936000-96941800	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr9:96936800-96945200	Weak transcription	Fetal Intestine Small	intestine
15	chr9:96937000-96942000	Strong transcription	HUES48 Cell Line	embryonic stem cell
16	chr9:96937000-96943400	Weak transcription	Aorta	Aorta
17	chr9:96937200-96943800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr9:96937200-96944800	Weak transcription	Fetal Heart	heart
19	chr9:96937200-96959400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:96937800-96942200	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr9:96937800-96942400	Strong transcription	H1 Cell Line	embryonic stem cell
22	chr9:96937800-96946600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:96938000-96942400	Strong transcription	Placenta	Placenta
24	chr9:96938200-96943000	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr9:96938200-96943600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr9:96938200-96949000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr9:96938400-96941800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
28	chr9:96938400-96942400	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr9:96938400-96944000	Strong transcription	Primary T cells from cord blood	blood
30	chr9:96938400-96944600	Strong transcription	HSMMtube	muscle
31	chr9:96938400-96947400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr9:96938600-96944000	Strong transcription	Primary B cells from peripheral blood	blood
33	chr9:96939000-96942400	Genic enhancers	Left Ventricle	heart
34	chr9:96939200-96942400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr9:96939200-96942400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr9:96939200-96942600	Strong transcription	Lung	lung
37	chr9:96939200-96943000	Strong transcription	Primary B cells from cord blood	blood
38	chr9:96939400-96942400	Strong transcription	Liver	Liver
39	chr9:96939400-96942600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr9:96939400-96943000	Strong transcription	HMEC	breast
41	chr9:96939400-96945000	Weak transcription	Colonic Mucosa	Colon
42	chr9:96939400-96948400	Weak transcription	Brain Germinal Matrix	brain
43	chr9:96939600-96942000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr9:96939600-96942000	Strong transcription	HUVEC	blood vessel
45	chr9:96939600-96943000	Weak transcription	Right Atrium	heart
46	chr9:96939600-96943600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr9:96939600-96944800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr9:96939600-96944800	Weak transcription	Brain Substantia Nigra	brain
49	chr9:96939600-96945000	Weak transcription	Gastric	stomach
50	chr9:96939600-96945400	Weak transcription	Stomach Smooth Muscle	stomach

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