Variant report

Variant	rs10965063
Chromosome Location	chr9:21549638-21549639
allele	A/G
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:52)

rs_ID	r²[population]
rs10491567	0.82[EUR][1000 genomes]
rs10811535	0.82[CEU][hapmap]
rs10811551	0.82[CEU][hapmap]
rs10811556	0.82[EUR][1000 genomes]
rs10811562	0.89[EUR][1000 genomes]
rs10811563	0.89[EUR][1000 genomes]
rs10811564	0.87[EUR][1000 genomes]
rs10964981	1.00[CEU][hapmap]
rs10964982	0.82[CEU][hapmap]
rs10964985	1.00[CEU][hapmap]
rs10965002	1.00[CEU][hapmap]
rs10965005	0.82[CEU][hapmap]
rs10965008	1.00[CEU][hapmap]
rs10965019	0.80[EUR][1000 genomes]
rs10965024	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs10965034	0.80[EUR][1000 genomes]
rs10965036	0.80[EUR][1000 genomes]
rs10965050	0.85[EUR][1000 genomes]
rs10965053	0.89[EUR][1000 genomes]
rs10965054	0.89[EUR][1000 genomes]
rs10965059	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1125488	0.82[EUR][1000 genomes]
rs12375583	0.80[EUR][1000 genomes]
rs12377379	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12378286	0.89[EUR][1000 genomes]
rs12378990	0.89[EUR][1000 genomes]
rs12379382	0.89[EUR][1000 genomes]
rs12379709	0.89[EUR][1000 genomes]
rs12379721	0.89[EUR][1000 genomes]
rs1332188	0.80[EUR][1000 genomes]
rs16938384	0.82[CEU][hapmap]
rs16938433	0.80[EUR][1000 genomes]
rs16938435	0.80[EUR][1000 genomes]
rs16938448	0.89[EUR][1000 genomes]
rs55683539	0.89[EUR][1000 genomes]
rs55835613	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56122777	0.95[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs56337511	0.80[EUR][1000 genomes]
rs7026731	0.83[EUR][1000 genomes]
rs7032680	0.82[EUR][1000 genomes]
rs7034161	1.00[CEU][hapmap]
rs7041183	0.83[EUR][1000 genomes]
rs72703417	0.80[EUR][1000 genomes]
rs72703418	0.80[EUR][1000 genomes]
rs72703419	0.80[EUR][1000 genomes]
rs72703426	0.80[EUR][1000 genomes]
rs72703445	0.93[EUR][1000 genomes]
rs72703447	0.89[EUR][1000 genomes]
rs72703449	0.89[EUR][1000 genomes]
rs72703450	0.89[EUR][1000 genomes]
rs7861480	0.82[CEU][hapmap]
rs9644855	0.89[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:48 , 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	chr9:21536400-21552200	Weak transcription	Gastric	stomach
4	chr9:21542200-21551800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr9:21543400-21551600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr9:21543600-21552200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr9:21545000-21550000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:21545600-21555600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:21546400-21553600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr9:21547000-21550600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr9:21547000-21553400	Transcr. at gene 5' and 3'	HMEC	breast
12	chr9:21547400-21551000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr9:21547800-21550000	Flanking Active TSS	A549	lung
14	chr9:21548200-21551000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr9:21548400-21551400	Flanking Active TSS	Hela-S3	cervix
16	chr9:21548400-21553800	Enhancers	Stomach Mucosa	stomach
17	chr9:21548400-21553800	Transcr. at gene 5' and 3'	NHEK	skin
18	chr9:21548400-21558200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:21548600-21550000	Weak transcription	Psoas Muscle	Psoas
20	chr9:21548600-21550200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr9:21548600-21550400	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr9:21548600-21550800	Weak transcription	Fetal Intestine Large	intestine
23	chr9:21548800-21549800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:21548800-21552800	Enhancers	Fetal Intestine Small	intestine
25	chr9:21549000-21549800	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr9:21549200-21549800	Active TSS	NHLF	lung
27	chr9:21549200-21550000	Enhancers	Adipose Nuclei	Adipose
28	chr9:21549200-21550000	Flanking Active TSS	HSMM	muscle
29	chr9:21549400-21549800	Flanking Active TSS	Duodenum Mucosa	Duodenum
30	chr9:21549400-21549800	Flanking Active TSS	NH-A	brain
31	chr9:21549400-21549800	Flanking Active TSS	NHDF-Ad	bronchial
32	chr9:21549400-21550000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr9:21549400-21550000	Enhancers	Fetal Lung	lung
34	chr9:21549400-21550000	Flanking Active TSS	Osteobl	bone
35	chr9:21549400-21550200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
36	chr9:21549400-21550600	Enhancers	Aorta	Aorta
37	chr9:21549400-21550600	Enhancers	Ovary	ovary
38	chr9:21549400-21550800	Transcr. at gene 5' and 3'	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr9:21549400-21551800	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr9:21549400-21553800	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr9:21549600-21549800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr9:21549600-21549800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr9:21549600-21549800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr9:21549600-21549800	Flanking Active TSS	HSMMtube	muscle
45	chr9:21549600-21550000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr9:21549600-21550200	Flanking Active TSS	HUVEC	blood vessel
47	chr9:21549600-21551800	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr9:21549600-21552800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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