Variant report

Variant	rs12003510
Chromosome Location	chr9:140621340-140621341
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:140620597..140623025-chr9:140630074..140631675,2	MCF-7	breast:
2	chr9:140621172..140623675-chr9:140625261..140627208,2	MCF-7	breast:
3	chr9:140620032..140621601-chr9:140644743..140646680,2	K562	blood:

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11999720	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12000196	0.95[YRI][hapmap]
rs12002515	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs12002913	0.88[AFR][1000 genomes]
rs12003716	0.90[AFR][1000 genomes]
rs12003934	0.95[YRI][hapmap];0.92[AFR][1000 genomes]
rs12004407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35467946	0.95[AFR][1000 genomes]
rs56170653	0.89[AFR][1000 genomes]
rs56213705	0.90[AFR][1000 genomes]
rs57109888	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57609312	0.94[AFR][1000 genomes]
rs58326032	0.94[AFR][1000 genomes]
rs58584363	0.81[AFR][1000 genomes]
rs59352070	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60311669	0.89[AFR][1000 genomes]
rs60353612	0.94[AFR][1000 genomes]
rs60572571	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60885457	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6559224	0.89[AFR][1000 genomes]
rs6559227	0.89[AFR][1000 genomes]
rs7019535	0.95[YRI][hapmap];0.94[AFR][1000 genomes]
rs7025084	0.94[AFR][1000 genomes]
rs7029909	0.92[AFR][1000 genomes]
rs7030367	0.92[AFR][1000 genomes]
rs73572120	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73572122	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73572126	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73574124	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73574166	0.92[AFR][1000 genomes]
rs73574183	0.92[AFR][1000 genomes]
rs73574192	0.94[AFR][1000 genomes]
rs73576103	0.92[AFR][1000 genomes]
rs73576107	0.92[AFR][1000 genomes]
rs73576115	0.86[AFR][1000 genomes]
rs73576123	0.92[AFR][1000 genomes]
rs73576128	0.92[AFR][1000 genomes]
rs73576187	0.92[AFR][1000 genomes]
rs73578104	0.90[AFR][1000 genomes]
rs73669162	0.83[AFR][1000 genomes]
rs73669163	0.88[AFR][1000 genomes]
rs73669168	0.90[AFR][1000 genomes]
rs73669179	0.87[AFR][1000 genomes]
rs7848648	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7848768	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7853060	0.95[YRI][hapmap];0.92[AFR][1000 genomes]
rs7857087	0.92[AFR][1000 genomes]
rs7864181	0.94[AFR][1000 genomes]
rs7864620	0.95[YRI][hapmap];0.92[AFR][1000 genomes]
rs7868455	0.95[YRI][hapmap];0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:38 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894499	chr9:139810595-140734161	Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
2	nsv531664	chr9:140110329-140725056	ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	275 gene(s)	inside rSNPs	diseases
3	nsv531654	chr9:140110329-141033187	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	281 gene(s)	inside rSNPs	diseases
4	nsv932633	chr9:140240417-141053535	Enhancers Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS 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	107 gene(s)	inside rSNPs	diseases
5	nsv1035524	chr9:140251014-140751633	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	99 gene(s)	inside rSNPs	diseases
6	nsv1053628	chr9:140260666-141005637	Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	105 gene(s)	inside rSNPs	diseases
7	nsv534215	chr9:140286134-141008915	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats 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 miRNA target site	105 gene(s)	inside rSNPs	n/a
8	nsv1035388	chr9:140306746-140654768	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	96 gene(s)	inside rSNPs	n/a
9	nsv1039672	chr9:140343466-140707505	Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking 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	85 gene(s)	inside rSNPs	n/a
10	nsv540358	chr9:140343466-140707505	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	85 gene(s)	inside rSNPs	n/a
11	nsv531665	chr9:140378700-141073897	Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	n/a
12	nsv868924	chr9:140407572-141053525	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	n/a
13	nsv1039933	chr9:140408112-141005637	Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	n/a
14	nsv531666	chr9:140409395-141015925	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	n/a
15	esv3398333	chr9:140451462-140814795	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	n/a
16	nsv1052036	chr9:140452641-141018985	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	n/a
17	nsv540365	chr9:140452641-141018985	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	n/a
18	nsv949702	chr9:140466816-141027939	Strong transcription Active TSS Genic enhancers Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats 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 miRNA target site	62 gene(s)	inside rSNPs	n/a
19	nsv531667	chr9:140468821-140936261	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	n/a
20	nsv531668	chr9:140492807-140986221	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	n/a
21	nsv531669	chr9:140514663-140852911	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	n/a
22	nsv1053192	chr9:140532404-141005637	Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	n/a
23	nsv540366	chr9:140532404-141005637	Weak transcription Strong transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	n/a
24	nsv532478	chr9:140535164-140786943	Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	n/a
25	nsv894676	chr9:140536098-140734161	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	n/a
26	nsv534573	chr9:140550908-140757122	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	n/a
27	esv3332301	chr9:140570414-140663373	Genic enhancers Enhancers Strong transcription ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a
28	nsv1038506	chr9:140575692-140622394	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
29	nsv1038090	chr9:140575692-141005637	Genic enhancers ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	n/a
30	nsv1042984	chr9:140581700-140854178	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	n/a
31	nsv894677	chr9:140594915-140675088	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
32	nsv1041630	chr9:140595159-140785692	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	n/a
33	nsv540367	chr9:140595159-140785692	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	n/a
34	nsv1046076	chr9:140612799-140892404	Strong transcription Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	n/a
35	nsv1055039	chr9:140612799-141005637	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	n/a
36	nsv540368	chr9:140612799-141005637	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	n/a
37	nsv1040882	chr9:140615894-140810534	Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	n/a
38	nsv540369	chr9:140615894-140810534	Bivalent Enhancer Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:140573000-140638400	Weak transcription	Small Intestine	intestine
2	chr9:140598800-140649800	Weak transcription	Stomach Mucosa	stomach
3	chr9:140603200-140634000	Weak transcription	Fetal Heart	heart
4	chr9:140604000-140634200	Weak transcription	Right Atrium	heart
5	chr9:140610800-140640000	Weak transcription	HUVEC	blood vessel
6	chr9:140613000-140622600	Weak transcription	HSMM	muscle
7	chr9:140613000-140624200	Weak transcription	Brain Angular Gyrus	brain
8	chr9:140613000-140628400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr9:140614400-140622200	Weak transcription	HepG2	liver
10	chr9:140615400-140622800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:140615800-140622000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:140615800-140622800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr9:140615800-140625800	Strong transcription	Thymus	Thymus
14	chr9:140617200-140622600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:140618000-140624400	Strong transcription	Dnd41	blood
16	chr9:140618200-140625600	Strong transcription	Fetal Muscle Leg	muscle
17	chr9:140618200-140627200	Strong transcription	A549	lung
18	chr9:140618400-140621600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
19	chr9:140618600-140621800	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr9:140618600-140625200	Weak transcription	Psoas Muscle	Psoas
21	chr9:140618600-140630400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr9:140618600-140634600	Weak transcription	NH-A	brain
23	chr9:140618800-140621400	ZNF genes & repeats	Fetal Intestine Small	intestine
24	chr9:140618800-140621400	ZNF genes & repeats	GM12878-XiMat	blood
25	chr9:140618800-140626600	Weak transcription	Osteobl	bone
26	chr9:140618800-140627200	Weak transcription	NHDF-Ad	bronchial
27	chr9:140619000-140622800	Weak transcription	Brain Anterior Caudate	brain
28	chr9:140619000-140622800	Weak transcription	Brain Cingulate Gyrus	brain
29	chr9:140619000-140622800	Weak transcription	Ovary	ovary
30	chr9:140619000-140623000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr9:140619000-140623000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr9:140619000-140623200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:140619000-140626000	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr9:140619000-140626000	Strong transcription	K562	blood
35	chr9:140619000-140626600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:140619000-140629000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr9:140619000-140629200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr9:140619000-140629800	Strong transcription	Adipose Nuclei	Adipose
39	chr9:140619000-140632200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr9:140619200-140621400	Strong transcription	Colonic Mucosa	Colon
41	chr9:140619200-140621800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr9:140619200-140622600	Weak transcription	Brain Substantia Nigra	brain
43	chr9:140619200-140622800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr9:140619200-140625000	Strong transcription	Fetal Muscle Trunk	muscle
45	chr9:140619200-140625800	Strong transcription	Primary B cells from cord blood	blood
46	chr9:140619200-140628000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr9:140619200-140631000	Strong transcription	Duodenum Mucosa	Duodenum
48	chr9:140619200-140632200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr9:140619200-140651400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr9:140619400-140621600	Strong transcription	HUES6 Cell Line	embryonic stem cell

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