Variant report

Variant	rs1683166
Chromosome Location	chr12:25219929-25219930
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	chr12:25219384..25221389-chr12:25223766..25226742,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1683169	0.84[AFR][1000 genomes]
rs7313952	0.89[EUR][1000 genomes]
rs7976264	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7980388	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs859141	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422312	chr12:24519392-25221686	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv469169	chr12:24692383-25357680	Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Weak transcription 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	34 gene(s)	inside rSNPs	diseases
3	nsv557775	chr12:24692383-25357680	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv932477	chr12:24705151-25346677	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv1067577	chr12:24791283-25346677	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats 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	22 gene(s)	inside rSNPs	diseases
6	nsv529514	chr12:24791283-25346677	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv1051319	chr12:24921100-25238936	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv1037288	chr12:24941350-25238936	Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv541428	chr12:24941350-25238936	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv1041218	chr12:24972019-25304356	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:25205000-25220000	Weak transcription	Spleen	Spleen
2	chr12:25205800-25224800	Weak transcription	Lung	lung
3	chr12:25207800-25221400	Weak transcription	Brain Angular Gyrus	brain
4	chr12:25209400-25264400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr12:25210000-25262800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr12:25212000-25250800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr12:25214200-25224000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
8	chr12:25214400-25224200	Weak transcription	Stomach Mucosa	stomach
9	chr12:25214400-25245600	Weak transcription	Ovary	ovary
10	chr12:25214400-25251800	Weak transcription	Fetal Intestine Large	intestine
11	chr12:25214800-25223800	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr12:25214800-25225400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr12:25215000-25223400	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr12:25215000-25226800	Strong transcription	Primary T cells from cord blood	blood
15	chr12:25215000-25265000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr12:25215200-25224000	Strong transcription	Primary neutrophils fromperipheralblood	blood
17	chr12:25215400-25221400	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr12:25215400-25223800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr12:25215400-25224000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr12:25215400-25225400	Strong transcription	Primary B cells from cord blood	blood
21	chr12:25215400-25228000	Strong transcription	Fetal Thymus	thymus
22	chr12:25215800-25226000	Strong transcription	Dnd41	blood
23	chr12:25216000-25224000	Strong transcription	Primary hematopoietic stem cells	blood
24	chr12:25216000-25227200	Strong transcription	Thymus	Thymus
25	chr12:25216200-25226600	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr12:25216400-25223200	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr12:25216600-25220600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr12:25216600-25222800	Strong transcription	Primary T killer memory cells from peripheral blood	blood
29	chr12:25216600-25223400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr12:25216600-25223600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr12:25216600-25224000	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr12:25216800-25222200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
33	chr12:25217000-25223600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr12:25217200-25221600	Strong transcription	Primary B cells from peripheral blood	blood
35	chr12:25218200-25221800	Strong transcription	Adipose Nuclei	Adipose
36	chr12:25218400-25223400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr12:25218600-25221600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr12:25218600-25239200	Weak transcription	Fetal Intestine Small	intestine
39	chr12:25218800-25222200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr12:25218800-25227200	Weak transcription	Pancreas	Pancrea
41	chr12:25219400-25220200	Strong transcription	GM12878-XiMat	blood
42	chr12:25219400-25221600	Strong transcription	Liver	Liver
43	chr12:25219400-25225400	Weak transcription	Left Ventricle	heart
44	chr12:25219800-25223800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links