Variant report

Variant	rs28446606
Chromosome Location	chr14:35671232-35671233
allele	A/G
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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:35670539..35672448-chr14:35874285..35876170,2	MCF-7	breast:
2	chr14:35665653..35668346-chr14:35670168..35673640,4	K562	blood:
3	chr14:35665653..35667827-chr14:35670189..35673146,2	K562	blood:
4	chr14:35669178..35671456-chr14:35674272..35676613,2	MCF-7	breast:
5	chr14:35670106..35671869-chr14:35871133..35873972,3	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PPP2R3C-4	chr14:35668509-35676125	l_962_chr14:35668508-35676460_thyroid

No data

Variant related genes	Relation type
ENSG00000100906	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10134120	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10137628	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10138507	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10141392	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10438061	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17103097	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17103098	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17103110	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17456102	0.80[EUR][1000 genomes]
rs17457389	0.88[EUR][1000 genomes]
rs17457568	0.86[EUR][1000 genomes]
rs17458137	0.86[EUR][1000 genomes]
rs17458214	0.86[EUR][1000 genomes]
rs17458367	0.83[EUR][1000 genomes]
rs17458562	0.83[EUR][1000 genomes]
rs17458715	0.83[EUR][1000 genomes]
rs17535082	1.00[EUR][1000 genomes]
rs17536892	0.83[EUR][1000 genomes]
rs17536948	0.83[EUR][1000 genomes]
rs17537213	0.83[EUR][1000 genomes]
rs17537248	0.83[EUR][1000 genomes]
rs17597246	0.83[EUR][1000 genomes]
rs28472413	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28510695	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28549180	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6571711	0.83[EUR][1000 genomes]
rs7147426	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7150752	0.83[EUR][1000 genomes]
rs7151763	0.83[EUR][1000 genomes]
rs7156874	0.83[EUR][1000 genomes]
rs7159008	0.92[EUR][1000 genomes]
rs7160592	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949617	chr14:35379923-35825436	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv1043470	chr14:35398522-35754029	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv542031	chr14:35398522-35754029	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
4	nsv564264	chr14:35482797-35732369	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	nsv870305	chr14:35488290-35852349	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
6	nsv1044515	chr14:35510785-35756317	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv1046992	chr14:35527239-35724227	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
8	nsv1051274	chr14:35529529-35724227	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
9	nsv1048823	chr14:35537281-35724892	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
10	nsv542032	chr14:35537281-35724892	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
11	nsv1040540	chr14:35537481-35724753	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
12	nsv542033	chr14:35537481-35724753	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
13	nsv1042625	chr14:35546094-35680358	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
14	nsv1050123	chr14:35546114-35724892	Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
15	nsv542034	chr14:35546114-35724892	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
16	nsv1043692	chr14:35548276-35720016	Weak transcription Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
17	nsv1053604	chr14:35548276-35825805	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
18	nsv1052392	chr14:35563220-35893309	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	83 gene(s)	inside rSNPs	diseases
19	nsv542036	chr14:35563220-35893309	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	83 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:35628600-35672000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr14:35643400-35671800	Weak transcription	Fetal Thymus	thymus
3	chr14:35643400-35724000	Weak transcription	Left Ventricle	heart
4	chr14:35650400-35682200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr14:35650600-35702600	Weak transcription	Liver	Liver
6	chr14:35650800-35707800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr14:35655800-35691800	Weak transcription	Psoas Muscle	Psoas
8	chr14:35660400-35683200	Weak transcription	HSMMtube	muscle
9	chr14:35661000-35672200	Weak transcription	Aorta	Aorta
10	chr14:35661000-35683400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr14:35661000-35690000	Weak transcription	Fetal Stomach	stomach
12	chr14:35661000-35736400	Weak transcription	Fetal Intestine Small	intestine
13	chr14:35661400-35682200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr14:35661600-35683000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr14:35662000-35671600	Weak transcription	HepG2	liver
16	chr14:35663200-35680200	Weak transcription	Primary B cells from cord blood	blood
17	chr14:35666200-35671800	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr14:35666200-35681800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr14:35666200-35683600	Weak transcription	GM12878-XiMat	blood
20	chr14:35666400-35682200	Weak transcription	HSMM	muscle
21	chr14:35666400-35682400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr14:35666400-35682400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr14:35666400-35683000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr14:35667400-35673200	Weak transcription	A549	lung
25	chr14:35667400-35681400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr14:35667800-35682000	Weak transcription	NHEK	skin
27	chr14:35667800-35682800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr14:35670000-35675600	Enhancers	Primary T helper cells PMA-I stimulated	--
29	chr14:35670200-35672200	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr14:35670200-35672400	Enhancers	Primary T cells from cord blood	blood
31	chr14:35670200-35672400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr14:35670200-35673200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr14:35670200-35675600	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr14:35670200-35675600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr14:35670400-35673200	Enhancers	Primary T cells fromperipheralblood	blood
36	chr14:35670600-35671600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr14:35670600-35671600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr14:35670600-35671600	Weak transcription	Thymus	Thymus
39	chr14:35670800-35671400	Weak transcription	Primary hematopoietic stem cells	blood
40	chr14:35670800-35671600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr14:35670800-35673200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
42	chr14:35670800-35676000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
43	chr14:35670800-35691800	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr14:35671000-35671400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr14:35671000-35671400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr14:35671000-35671400	Weak transcription	Dnd41	blood
47	chr14:35671200-35672000	Enhancers	Monocytes-CD14+_RO01746	blood
48	chr14:35671200-35672400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr14:35671200-35675600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr14:35671200-35675600	Enhancers	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links