Variant report

Variant	rs10868378
Chromosome Location	chr9:72624194-72624195
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1027283	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1027284	0.89[ASN][1000 genomes]
rs10735572	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10780718	0.83[ASN][1000 genomes]
rs10780724	0.83[ASN][1000 genomes]
rs10868291	0.83[ASN][1000 genomes]
rs10868299	0.83[ASN][1000 genomes]
rs10868327	0.82[ASN][1000 genomes]
rs10868358	0.94[ASN][1000 genomes]
rs1121607	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1121608	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1389125	0.88[ASN][1000 genomes]
rs1473520	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1493046	0.80[ASN][1000 genomes]
rs1493047	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1542769	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1586914	0.83[ASN][1000 genomes]
rs1873825	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1907956	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1907959	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2035922	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2975859	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2975860	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2975926	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015226	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3829096	0.80[EUR][1000 genomes]
rs4403478	0.94[ASN][1000 genomes]
rs4413835	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4418399	0.89[ASN][1000 genomes]
rs4445287	1.00[CEU][hapmap];0.86[JPT][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4487845	0.89[ASN][1000 genomes]
rs4490905	0.89[ASN][1000 genomes]
rs4574911	0.88[ASN][1000 genomes]
rs4636269	0.94[ASN][1000 genomes]
rs4744583	0.94[ASN][1000 genomes]
rs4744584	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60433205	0.92[EUR][1000 genomes]
rs7019025	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7023406	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7025044	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7029606	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7035415	0.89[ASN][1000 genomes]
rs7037671	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7847934	0.83[ASN][1000 genomes]
rs7863165	0.83[ASN][1000 genomes]
rs7863229	0.94[ASN][1000 genomes]
rs870011	0.89[ASN][1000 genomes]
rs902964	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs931500	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs953372	0.94[ASN][1000 genomes]
rs996375	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv831612	chr9:72473778-72634253	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1035668	chr9:72555053-72632796	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1051004	chr9:72557761-72632015	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72619600-72624800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr9:72619800-72626200	Weak transcription	HSMM	muscle
3	chr9:72619800-72627600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr9:72621200-72635400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr9:72621400-72628800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr9:72621600-72626600	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr9:72621800-72626000	Weak transcription	HSMMtube	muscle
8	chr9:72621800-72626200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:72621800-72626200	Weak transcription	Fetal Lung	lung
10	chr9:72621800-72626200	Weak transcription	NHDF-Ad	bronchial
11	chr9:72621800-72626400	Weak transcription	NH-A	brain
12	chr9:72621800-72626400	Weak transcription	NHLF	lung
13	chr9:72621800-72627000	Weak transcription	Stomach Smooth Muscle	stomach
14	chr9:72621800-72628400	Weak transcription	Osteobl	bone
15	chr9:72622000-72626200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr9:72622000-72626400	Weak transcription	Colon Smooth Muscle	Colon
17	chr9:72622000-72626800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr9:72622000-72627600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr9:72622000-72628200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:72622000-72628400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:72623000-72628200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr9:72623400-72627600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr9:72623400-72627600	Weak transcription	HMEC	breast
24	chr9:72623400-72628200	Weak transcription	NHEK	skin

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