Variant report

Variant	rs12553910
Chromosome Location	chr9:21324972-21324973
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10116540	0.84[EUR][1000 genomes]
rs10116615	0.80[ASN][1000 genomes]
rs10117202	0.94[EUR][1000 genomes]
rs10117677	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10120117	0.92[EUR][1000 genomes]
rs10122881	0.92[EUR][1000 genomes]
rs10124167	0.92[EUR][1000 genomes]
rs10738591	0.94[EUR][1000 genomes]
rs10757212	0.80[ASN][1000 genomes]
rs10757213	0.81[ASN][1000 genomes]
rs10811514	0.82[EUR][1000 genomes]
rs10811527	0.92[EUR][1000 genomes]
rs10811529	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10964918	0.82[EUR][1000 genomes]
rs10964928	0.84[EUR][1000 genomes]
rs10964929	0.84[EUR][1000 genomes]
rs10964930	0.84[EUR][1000 genomes]
rs10964932	0.84[EUR][1000 genomes]
rs10964933	0.84[EUR][1000 genomes]
rs10964934	0.84[EUR][1000 genomes]
rs10964943	0.89[EUR][1000 genomes]
rs10964952	0.92[EUR][1000 genomes]
rs10964957	0.91[EUR][1000 genomes]
rs10964959	0.92[EUR][1000 genomes]
rs10964960	0.80[ASN][1000 genomes]
rs10964961	0.92[EUR][1000 genomes]
rs10964966	0.81[ASN][1000 genomes]
rs1112783	0.92[EUR][1000 genomes]
rs12237982	0.81[AMR][1000 genomes]
rs12551190	0.84[EUR][1000 genomes]
rs12552812	0.84[EUR][1000 genomes]
rs12553763	0.84[EUR][1000 genomes]
rs12683349	0.80[ASN][1000 genomes]
rs1330312	0.92[EUR][1000 genomes]
rs1330313	0.81[ASN][1000 genomes]
rs1330314	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1360286	0.80[ASN][1000 genomes]
rs1411436	0.84[EUR][1000 genomes]
rs1467735	0.81[ASN][1000 genomes]
rs1467736	0.81[ASN][1000 genomes]
rs1590897	0.92[EUR][1000 genomes]
rs1928854	0.84[EUR][1000 genomes]
rs1928855	0.83[EUR][1000 genomes]
rs1928856	0.82[EUR][1000 genomes]
rs1952690	0.94[EUR][1000 genomes]
rs28437205	0.83[EUR][1000 genomes]
rs2988573	0.89[EUR][1000 genomes]
rs2988574	0.87[EUR][1000 genomes]
rs2990140	0.88[EUR][1000 genomes]
rs4112794	0.84[EUR][1000 genomes]
rs4568686	0.92[EUR][1000 genomes]
rs4582643	0.91[EUR][1000 genomes]
rs4628333	0.84[EUR][1000 genomes]
rs4977714	0.90[EUR][1000 genomes]
rs4978093	0.80[ASN][1000 genomes]
rs4978097	0.80[ASN][1000 genomes]
rs57122438	0.84[EUR][1000 genomes]
rs57146220	0.84[EUR][1000 genomes]
rs57371737	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs583396	0.89[EUR][1000 genomes]
rs597440	0.86[EUR][1000 genomes]
rs604762	0.89[EUR][1000 genomes]
rs612966	0.88[EUR][1000 genomes]
rs614541	0.89[EUR][1000 genomes]
rs618507	0.90[EUR][1000 genomes]
rs637700	0.89[EUR][1000 genomes]
rs653778	0.82[EUR][1000 genomes]
rs660675	0.86[EUR][1000 genomes]
rs667214	0.88[EUR][1000 genomes]
rs667635	0.88[EUR][1000 genomes]
rs681680	0.89[EUR][1000 genomes]
rs7035600	0.80[ASN][1000 genomes]
rs7035669	0.80[ASN][1000 genomes]
rs73418252	0.83[EUR][1000 genomes]
rs7848803	0.85[EUR][1000 genomes]
rs7857863	0.84[EUR][1000 genomes]
rs7862940	0.81[ASN][1000 genomes]
rs7866640	0.94[EUR][1000 genomes]
rs7872479	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs8729	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21316600-21330600	Weak transcription	Small Intestine	intestine
2	chr9:21317000-21326800	Weak transcription	Hela-S3	cervix
3	chr9:21317200-21331600	Weak transcription	Esophagus	oesophagus
4	chr9:21317200-21331600	Weak transcription	Gastric	stomach
5	chr9:21318200-21330000	Weak transcription	Brain Anterior Caudate	brain
6	chr9:21318200-21330400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr9:21318800-21326800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr9:21318800-21326800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr9:21318800-21330600	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr9:21318800-21331000	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr9:21318800-21331200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:21318800-21331800	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr9:21318800-21332600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr9:21318800-21332800	Weak transcription	Fetal Kidney	kidney
15	chr9:21319000-21326000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr9:21319000-21326800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr9:21319000-21332200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr9:21319000-21333200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:21319400-21329400	Weak transcription	Fetal Heart	heart
20	chr9:21319600-21333200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr9:21319800-21326000	Weak transcription	Fetal Brain Male	brain
22	chr9:21320000-21325600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr9:21320200-21326400	Strong transcription	HSMM	muscle
24	chr9:21320600-21326000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr9:21320600-21326200	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr9:21320600-21331600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr9:21320800-21326200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr9:21321000-21326800	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr9:21321200-21325000	Strong transcription	Fetal Brain Female	brain
30	chr9:21321200-21325000	Strong transcription	Fetal Intestine Small	intestine
31	chr9:21321200-21325200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr9:21321200-21326000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr9:21321400-21326000	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr9:21321400-21331600	Weak transcription	Spleen	Spleen
35	chr9:21321600-21325200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr9:21321600-21333400	Weak transcription	Colonic Mucosa	Colon
37	chr9:21321800-21326000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr9:21321800-21327000	Weak transcription	Brain Angular Gyrus	brain
39	chr9:21322000-21331600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr9:21322000-21331600	Weak transcription	HepG2	liver
41	chr9:21322200-21333600	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr9:21322400-21325000	Strong transcription	Osteobl	bone
43	chr9:21322400-21330400	Weak transcription	Psoas Muscle	Psoas
44	chr9:21322600-21326200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr9:21322600-21326200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr9:21322600-21327000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr9:21322800-21325200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr9:21322800-21326000	Strong transcription	Duodenum Mucosa	Duodenum
49	chr9:21322800-21326000	Strong transcription	Rectal Mucosa Donor 29	rectum
50	chr9:21322800-21326000	Strong transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links