Variant report

Variant	rs2583247
Chromosome Location	chr12:104271828-104271829
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:104271423..104272333-chr12:104502657..104503502,3	MCF-7	breast:
2	chr12:104266210..104268346-chr12:104271343..104272994,2	K562	blood:
3	chr12:104020008..104020914-chr12:104271652..104272393,3	MCF-7	breast:
4	chr12:104271475..104272300-chr12:104502718..104503322,2	K562	blood:
5	chr12:104270364..104272827-chr12:104323882..104326173,2	K562	blood:
6	chr12:104271327..104273911-chr12:104324205..104326173,2	K562	blood:
7	chr12:104266210..104269616-chr12:104269671..104272994,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000166598	Chromatin interaction
ENSG00000265072	Chromatin interaction
ENSG00000214198	Chromatin interaction

Extended variants
information (count: 156 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:154)

rs_ID	r²[population]
rs1000295	0.91[JPT][hapmap]
rs10745982	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10745983	0.85[YRI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10745986	0.97[ASN][1000 genomes]
rs10745987	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10745988	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10745989	0.87[ASN][1000 genomes]
rs10745990	0.91[ASN][1000 genomes]
rs10778291	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10778293	0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10778294	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10778295	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10778297	0.97[ASN][1000 genomes]
rs10778298	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10778299	0.97[ASN][1000 genomes]
rs10778300	0.96[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10778301	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10778302	0.95[ASN][1000 genomes]
rs10778303	0.97[ASN][1000 genomes]
rs10778304	0.97[ASN][1000 genomes]
rs10861126	0.97[ASN][1000 genomes]
rs10861128	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10861129	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10861134	0.96[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10861135	0.97[ASN][1000 genomes]
rs10861136	0.85[ASN][1000 genomes]
rs10861137	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10861138	0.86[JPT][hapmap]
rs10861139	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10861140	0.97[ASN][1000 genomes]
rs11111816	0.84[EUR][1000 genomes]
rs11111817	0.84[EUR][1000 genomes]
rs11111820	0.88[YRI][hapmap]
rs11111822	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11111823	0.97[ASN][1000 genomes]
rs11111824	0.97[ASN][1000 genomes]
rs11111827	0.93[ASN][1000 genomes]
rs11111828	0.82[ASN][1000 genomes]
rs11613427	0.97[ASN][1000 genomes]
rs1165596	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1165597	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1165598	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11830285	0.89[YRI][hapmap]
rs1185985	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12312978	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1583599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1595338	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1595339	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2033730	0.96[ASN][1000 genomes]
rs2118313	0.91[JPT][hapmap]
rs2196614	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2248382	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2251979	0.84[EUR][1000 genomes]
rs2252000	0.84[EUR][1000 genomes]
rs2252088	0.84[EUR][1000 genomes]
rs2263954	0.85[EUR][1000 genomes]
rs2374350	0.93[ASN][1000 genomes]
rs2374351	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2374352	0.95[ASN][1000 genomes]
rs2374353	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2438116	0.84[EUR][1000 genomes]
rs2438389	0.84[EUR][1000 genomes]
rs2439622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2576950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2576957	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576958	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576960	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2576961	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2576962	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2576963	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2576964	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2576965	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2576967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2576970	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2583236	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2583240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2583241	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2583242	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2583243	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2583245	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2583246	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2583248	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2583249	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2583250	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2888809	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2888810	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs34978042	0.84[ASN][1000 genomes]
rs3850016	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3850017	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3850018	0.97[ASN][1000 genomes]
rs3850019	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3850020	0.93[ASN][1000 genomes]
rs4316574	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4488278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4491322	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4511355	0.97[ASN][1000 genomes]
rs4556622	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4590949	0.88[YRI][hapmap]
rs4964118	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4964308	0.97[ASN][1000 genomes]
rs4964322	0.97[ASN][1000 genomes]
rs4964323	0.97[ASN][1000 genomes]
rs4964326	0.95[ASN][1000 genomes]
rs4964327	0.97[ASN][1000 genomes]
rs4964328	0.97[ASN][1000 genomes]
rs4964329	0.97[ASN][1000 genomes]
rs4964330	0.97[ASN][1000 genomes]
rs6539109	0.89[ASN][1000 genomes]
rs6539110	0.97[ASN][1000 genomes]
rs7136272	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7136297	0.96[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7138145	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7138345	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7138361	0.97[ASN][1000 genomes]
rs728165	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs728166	0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs7294443	0.93[ASN][1000 genomes]
rs7295172	0.93[ASN][1000 genomes]
rs7295268	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7295285	0.93[ASN][1000 genomes]
rs7295499	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7295782	0.81[ASN][1000 genomes]
rs7298496	0.97[ASN][1000 genomes]
rs7298653	0.97[ASN][1000 genomes]
rs7298655	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7299349	0.90[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs7301439	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7310988	0.96[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7311473	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7312936	0.92[ASN][1000 genomes]
rs7314790	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7488952	0.95[ASN][1000 genomes]
rs7956005	0.97[ASN][1000 genomes]
rs7956297	0.97[ASN][1000 genomes]
rs7957862	0.97[ASN][1000 genomes]
rs7963412	0.97[ASN][1000 genomes]
rs7964542	0.93[ASN][1000 genomes]
rs7964654	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7967501	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7967668	0.86[AMR][1000 genomes]
rs7970923	0.94[ASN][1000 genomes]
rs7971070	0.91[ASN][1000 genomes]
rs7971105	0.97[ASN][1000 genomes]
rs7979423	0.91[ASN][1000 genomes]
rs7979749	0.83[ASN][1000 genomes]
rs878125	0.96[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs878126	0.96[ASN][1000 genomes]
rs9888379	0.93[ASN][1000 genomes]
rs9943750	0.84[ASN][1000 genomes]
rs9943761	0.96[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9943762	0.96[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9943812	0.97[ASN][1000 genomes]
rs9943844	0.91[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs9988931	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34031	chr12:104114277-104298546	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv560039	chr12:104177668-104455340	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:104254800-104278200	Weak transcription	Aorta	Aorta
2	chr12:104270000-104272800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr12:104271200-104272000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr12:104271400-104272200	Enhancers	Primary B cells from peripheral blood	blood
5	chr12:104271400-104272200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr12:104271400-104272600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr12:104271600-104274400	Enhancers	GM12878-XiMat	blood
8	chr12:104271800-104272200	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr12:104271800-104272200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr12:104271800-104272200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr12:104271800-104272200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr12:104271800-104272200	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr12:104271800-104272200	Enhancers	Stomach Mucosa	stomach
14	chr12:104271800-104272400	Enhancers	Primary T cells fromperipheralblood	blood
15	chr12:104271800-104272400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr12:104271800-104272400	Enhancers	Dnd41	blood
17	chr12:104271800-104272600	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr12:104271800-104272600	Enhancers	Fetal Thymus	thymus
19	chr12:104271800-104274000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr12:104271800-104275600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links