Variant report

Variant	rs10965059
Chromosome Location	chr9:21544062-21544063
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10491567	0.89[EUR][1000 genomes]
rs10811549	0.84[EUR][1000 genomes]
rs10811551	0.82[EUR][1000 genomes]
rs10811556	0.89[EUR][1000 genomes]
rs10811562	0.95[EUR][1000 genomes]
rs10811563	0.95[EUR][1000 genomes]
rs10811564	0.93[EUR][1000 genomes]
rs10965019	0.86[EUR][1000 genomes]
rs10965024	0.86[EUR][1000 genomes]
rs10965031	0.82[EUR][1000 genomes]
rs10965034	0.86[EUR][1000 genomes]
rs10965036	0.86[EUR][1000 genomes]
rs10965050	0.91[EUR][1000 genomes]
rs10965053	0.95[EUR][1000 genomes]
rs10965054	0.95[EUR][1000 genomes]
rs10965063	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1125488	0.88[EUR][1000 genomes]
rs12375583	0.86[EUR][1000 genomes]
rs12377379	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12378286	0.95[EUR][1000 genomes]
rs12378990	0.95[EUR][1000 genomes]
rs12379382	0.95[EUR][1000 genomes]
rs12379672	0.81[ASN][1000 genomes]
rs12379709	0.95[EUR][1000 genomes]
rs12379721	0.95[EUR][1000 genomes]
rs1332188	0.86[EUR][1000 genomes]
rs16938433	0.86[EUR][1000 genomes]
rs16938435	0.87[EUR][1000 genomes]
rs16938448	0.95[EUR][1000 genomes]
rs2039380	0.80[EUR][1000 genomes]
rs55683539	0.95[EUR][1000 genomes]
rs55835613	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56122777	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56337511	0.86[EUR][1000 genomes]
rs7026731	0.89[EUR][1000 genomes]
rs7032680	0.89[EUR][1000 genomes]
rs7041183	0.89[EUR][1000 genomes]
rs72703410	0.84[EUR][1000 genomes]
rs72703411	0.82[EUR][1000 genomes]
rs72703417	0.86[EUR][1000 genomes]
rs72703418	0.86[EUR][1000 genomes]
rs72703419	0.86[EUR][1000 genomes]
rs72703426	0.86[EUR][1000 genomes]
rs72703445	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72703447	0.95[EUR][1000 genomes]
rs72703449	0.95[EUR][1000 genomes]
rs72703450	0.95[EUR][1000 genomes]
rs9644855	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892740	chr9:21471499-21551513	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA	110 gene(s)	inside rSNPs	diseases
2	nsv1031432	chr9:21472601-21608774	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	122 gene(s)	inside rSNPs	diseases
3	nsv540085	chr9:21472601-21608774	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	122 gene(s)	inside rSNPs	diseases
4	nsv892741	chr9:21517302-21551513	Genic enhancers Enhancers Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1029634	chr9:21542970-21765286	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21507200-21551400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr9:21529000-21551400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:21534000-21544200	Weak transcription	NHDF-Ad	bronchial
4	chr9:21534400-21548200	Weak transcription	HSMM	muscle
5	chr9:21536400-21544400	Weak transcription	Hela-S3	cervix
6	chr9:21536400-21546800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr9:21536400-21552200	Weak transcription	Gastric	stomach
8	chr9:21536600-21548400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr9:21536600-21549600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr9:21542000-21544200	Genic enhancers	HMEC	breast
11	chr9:21542000-21545400	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:21542200-21551800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:21542800-21545600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr9:21543200-21545400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:21543200-21546800	Weak transcription	NHLF	lung
16	chr9:21543200-21547200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr9:21543400-21544600	Enhancers	HUVEC	blood vessel
18	chr9:21543400-21545000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
19	chr9:21543400-21551600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:21543600-21544200	Strong transcription	A549	lung
21	chr9:21543600-21544600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:21543600-21545200	Strong transcription	Muscle Satellite Cultured Cells	--
23	chr9:21543600-21546200	Strong transcription	Osteobl	bone
24	chr9:21543600-21546800	Weak transcription	Stomach Mucosa	stomach
25	chr9:21543600-21548200	Weak transcription	Duodenum Mucosa	Duodenum
26	chr9:21543600-21549000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:21543600-21552200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr9:21543800-21545600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:21543800-21546800	Genic enhancers	NHEK	skin
30	chr9:21544000-21544600	ZNF genes & repeats	Fetal Intestine Small	intestine
31	chr9:21544000-21544800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr9:21544000-21545200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
33	chr9:21544000-21545200	Strong transcription	NH-A	brain

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