Variant report

Variant	rs12219275
Chromosome Location	chr10:98331129-98331130
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98330931..98333230-chr10:98335088..98337430,2	K562	blood:

Variant related genes	Relation type
ENSG00000077147	Chromatin interaction

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10128106	0.85[ASN][1000 genomes]
rs1018604	0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs1018605	0.84[CHD][hapmap];0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs1051450	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1063605	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10736114	0.83[JPT][hapmap]
rs10882809	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10882811	0.84[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs10882813	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs10882815	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10882817	0.85[ASN][1000 genomes]
rs10882821	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10882827	0.93[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11188809	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188810	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188811	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188813	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188814	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188817	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188821	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188825	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188827	0.82[ASN][1000 genomes]
rs11188831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188832	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188840	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188842	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188847	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.90[JPT][hapmap];0.81[TSI][hapmap];0.86[ASN][1000 genomes]
rs11188848	0.89[ASN][1000 genomes]
rs11188853	0.82[ASN][1000 genomes]
rs11188856	0.83[JPT][hapmap]
rs11188858	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1132913	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1132914	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1156035	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1156036	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11814010	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12218847	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12220047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12221143	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12221262	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12413053	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12414612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12415048	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12416646	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12761817	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12766248	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12775533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12776810	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12779720	0.89[CEU][hapmap];0.82[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12784975	0.87[LWK][hapmap];0.81[MKK][hapmap]
rs1324255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1324256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324259	0.91[ASN][1000 genomes]
rs1324261	0.84[ASN][1000 genomes]
rs1408367	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.89[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17391547	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17482382	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2011190	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2025451	0.91[ASN][1000 genomes]
rs2031326	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2031329	0.85[ASN][1000 genomes]
rs2861555	0.85[ASN][1000 genomes]
rs33964467	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35779764	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36098523	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3748234	0.84[CHD][hapmap];0.83[JPT][hapmap]
rs3748235	0.80[CHD][hapmap]
rs3748236	0.88[ASN][1000 genomes]
rs3748237	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3748238	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3789957	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs3789958	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3818389	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs4146727	1.00[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs4485036	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4534508	1.00[CEU][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4917742	0.83[JPT][hapmap]
rs4919029	0.84[CHD][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs4919032	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs4919037	0.91[ASN][1000 genomes]
rs4919040	0.82[CHB][hapmap]
rs58305369	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs61858194	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61858494	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61859300	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7069429	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7070686	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7071044	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7071224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7071881	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7073017	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7073682	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7074516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7082873	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7085389	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7086213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7086240	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7087478	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7091606	0.94[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7097291	0.91[ASN][1000 genomes]
rs7101320	0.81[ASN][1000 genomes]
rs713251	0.94[CEU][hapmap];0.96[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.89[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7448	0.84[CHD][hapmap];0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs7914154	0.83[JPT][hapmap]
rs7919739	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs8578	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs912480	0.83[JPT][hapmap]
rs927639	0.81[ASN][1000 genomes]
rs9633703	0.84[CHD][hapmap];0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs9664749	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9664955	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats 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 target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98274200-98331200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:98276400-98343200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr10:98286600-98338400	Weak transcription	Aorta	Aorta
4	chr10:98286600-98339400	Weak transcription	Brain Angular Gyrus	brain
5	chr10:98286600-98345600	Weak transcription	Esophagus	oesophagus
6	chr10:98290000-98344200	Weak transcription	Spleen	Spleen
7	chr10:98292600-98344800	Weak transcription	Brain Germinal Matrix	brain
8	chr10:98307400-98331200	Weak transcription	Fetal Brain Male	brain
9	chr10:98307800-98341600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr10:98314400-98345600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:98317000-98333400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr10:98319200-98338400	Weak transcription	Colonic Mucosa	Colon
13	chr10:98320200-98344800	Weak transcription	HSMMtube	muscle
14	chr10:98320400-98341600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr10:98321600-98331200	Weak transcription	Fetal Heart	heart
16	chr10:98321800-98336800	Weak transcription	HMEC	breast
17	chr10:98322200-98343400	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr10:98323000-98339600	Weak transcription	K562	blood
19	chr10:98323200-98334400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr10:98324000-98338000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr10:98324200-98331200	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr10:98324200-98334400	Weak transcription	Fetal Thymus	thymus
23	chr10:98324400-98339600	Weak transcription	Adipose Nuclei	Adipose
24	chr10:98324600-98334600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr10:98324600-98334800	Weak transcription	NH-A	brain
26	chr10:98324600-98345000	Weak transcription	Fetal Kidney	kidney
27	chr10:98325200-98336200	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr10:98325600-98333200	Strong transcription	HepG2	liver
29	chr10:98326000-98336000	Weak transcription	NHLF	lung
30	chr10:98326200-98333600	Strong transcription	Dnd41	blood
31	chr10:98326200-98334600	Weak transcription	Osteobl	bone
32	chr10:98326400-98331400	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr10:98326400-98338400	Weak transcription	Brain Anterior Caudate	brain
34	chr10:98326400-98339000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr10:98326600-98336200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr10:98326600-98341600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr10:98326800-98336400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr10:98326800-98336600	Weak transcription	Primary T cells from cord blood	blood
39	chr10:98327200-98337200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr10:98327600-98339600	Weak transcription	Thymus	Thymus
41	chr10:98327600-98339800	Weak transcription	Right Atrium	heart
42	chr10:98327800-98331200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr10:98327800-98334400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr10:98327800-98336200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr10:98328000-98331600	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr10:98328000-98333000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr10:98328000-98343200	Weak transcription	Stomach Smooth Muscle	stomach
48	chr10:98328200-98334600	Weak transcription	Placenta	Placenta
49	chr10:98328200-98336400	Weak transcription	A549	lung
50	chr10:98328200-98341400	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links