Variant report

Variant	rs12046202
Chromosome Location	chr1:185068252-185068253
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	chr1:185014298..185015866-chr1:185065926..185068638,2	K562	blood:

Variant related genes	Relation type
ENSG00000121481	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1008502	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1046592	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10489581	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10797998	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10911673	0.80[AMR][1000 genomes]
rs10911674	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10911676	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10911682	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10911686	0.85[EUR][1000 genomes]
rs12022419	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12023744	0.97[EUR][1000 genomes]
rs12025995	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12026000	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12028809	0.83[EUR][1000 genomes]
rs12030761	0.82[ASN][1000 genomes]
rs12030778	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12030967	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12031837	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12035073	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12035433	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12037466	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12037692	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12038919	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12039541	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12039657	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12041374	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12043427	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12043495	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12043561	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12043617	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12044161	0.97[EUR][1000 genomes]
rs12044997	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12045772	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12046095	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12046801	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12049293	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12086086	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12401293	0.90[EUR][1000 genomes]
rs12404644	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12408279	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12408500	0.85[EUR][1000 genomes]
rs12409926	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1407554	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1544052	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16865296	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2273881	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2378958	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3766720	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3766723	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3806243	0.85[EUR][1000 genomes]
rs41264588	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs41264590	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56107433	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61125463	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61495015	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72724103	0.85[EUR][1000 genomes]
rs72724108	0.83[EUR][1000 genomes]
rs72739693	0.80[AMR][1000 genomes]
rs72739698	0.80[AMR][1000 genomes]
rs72739699	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs72741807	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72741808	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72741816	0.85[EUR][1000 genomes]
rs72741817	0.81[EUR][1000 genomes]
rs72741819	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv548396	chr1:185038104-185151378	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185016400-185073800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:185018400-185101800	Weak transcription	Fetal Brain Male	brain
3	chr1:185030200-185076600	Weak transcription	Gastric	stomach
4	chr1:185034800-185077000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr1:185043600-185069400	Weak transcription	Pancreas	Pancrea
6	chr1:185045000-185068800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr1:185052000-185076200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr1:185052400-185074800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr1:185052800-185070800	Weak transcription	Small Intestine	intestine
10	chr1:185052800-185076600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr1:185053600-185070800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr1:185054200-185073200	Weak transcription	Brain Anterior Caudate	brain
13	chr1:185054200-185073800	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr1:185054400-185101800	Weak transcription	A549	lung
15	chr1:185054600-185068800	Weak transcription	Brain Angular Gyrus	brain
16	chr1:185054800-185072400	Weak transcription	HepG2	liver
17	chr1:185055000-185070200	Weak transcription	Colon Smooth Muscle	Colon
18	chr1:185055200-185070200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr1:185055200-185076600	Weak transcription	Lung	lung
20	chr1:185055400-185069200	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr1:185055400-185096200	Weak transcription	Hela-S3	cervix
22	chr1:185056000-185076800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr1:185056200-185072400	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr1:185056200-185074200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr1:185056200-185124200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr1:185056400-185071400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr1:185056400-185073800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr1:185056400-185074000	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr1:185056600-185069400	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr1:185056600-185069800	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr1:185056600-185074000	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr1:185056600-185077000	Weak transcription	Thymus	Thymus
33	chr1:185057200-185073400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr1:185057200-185074000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:185057600-185094600	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr1:185058200-185074800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr1:185058600-185072800	Weak transcription	NHLF	lung
38	chr1:185058600-185089000	Weak transcription	Ovary	ovary
39	chr1:185058800-185069600	Weak transcription	Brain Substantia Nigra	brain
40	chr1:185058800-185075800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr1:185058800-185075800	Weak transcription	Stomach Smooth Muscle	stomach
42	chr1:185058800-185093600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr1:185059000-185073400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr1:185059000-185076200	Weak transcription	Brain Germinal Matrix	brain
45	chr1:185059000-185124800	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr1:185059600-185070000	Strong transcription	Primary B cells from cord blood	blood
47	chr1:185060600-185070000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
48	chr1:185060800-185074000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr1:185061600-185070400	Weak transcription	Fetal Intestine Small	intestine
50	chr1:185061800-185070600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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