Variant report

Variant	rs9806058
Chromosome Location	chr14:35673470-35673471
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:35665653..35668346-chr14:35670168..35673640,4	K562	blood:
2	chr14:35673298..35676269-chr14:35873221..35876037,2	MCF-7	breast:

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

Variant related genes	Relation type
ENSG00000100906	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10135636	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10140180	0.84[EUR][1000 genomes]
rs10140819	0.81[EUR][1000 genomes]
rs10141237	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10142113	0.84[EUR][1000 genomes]
rs10144186	0.84[EUR][1000 genomes]
rs10151128	0.84[EUR][1000 genomes]
rs10467708	0.84[EUR][1000 genomes]
rs11846149	0.94[EUR][1000 genomes]
rs11847892	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs17458583	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17597267	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17597281	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2277460	0.84[EUR][1000 genomes]
rs28461608	0.84[EUR][1000 genomes]
rs28522717	0.84[EUR][1000 genomes]
rs28714617	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60707741	0.81[EUR][1000 genomes]
rs7140912	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7141912	0.94[EUR][1000 genomes]
rs7144747	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs7158019	0.84[EUR][1000 genomes]
rs74043845	0.91[EUR][1000 genomes]
rs8012896	0.84[EUR][1000 genomes]
rs8014594	0.84[EUR][1000 genomes]
rs8017330	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs8017676	1.00[CEU][hapmap];0.84[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	chr14:35643400-35724000	Weak transcription	Left Ventricle	heart
2	chr14:35650400-35682200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr14:35650600-35702600	Weak transcription	Liver	Liver
4	chr14:35650800-35707800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr14:35655800-35691800	Weak transcription	Psoas Muscle	Psoas
6	chr14:35660400-35683200	Weak transcription	HSMMtube	muscle
7	chr14:35661000-35683400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr14:35661000-35690000	Weak transcription	Fetal Stomach	stomach
9	chr14:35661000-35736400	Weak transcription	Fetal Intestine Small	intestine
10	chr14:35661400-35682200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr14:35661600-35683000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr14:35663200-35680200	Weak transcription	Primary B cells from cord blood	blood
13	chr14:35666200-35681800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr14:35666200-35683600	Weak transcription	GM12878-XiMat	blood
15	chr14:35666400-35682200	Weak transcription	HSMM	muscle
16	chr14:35666400-35682400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr14:35666400-35682400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr14:35666400-35683000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr14:35667400-35681400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr14:35667800-35682000	Weak transcription	NHEK	skin
21	chr14:35667800-35682800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr14:35670000-35675600	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr14:35670200-35675600	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr14:35670200-35675600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr14:35670800-35676000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr14:35670800-35691800	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr14:35671200-35675600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr14:35671200-35675600	Enhancers	Primary T killer memory cells from peripheral blood	blood
29	chr14:35671400-35673600	Enhancers	Primary hematopoietic stem cells	blood
30	chr14:35671400-35674000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr14:35671400-35674400	Enhancers	Dnd41	blood
32	chr14:35671400-35675600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr14:35671600-35674400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
34	chr14:35672000-35680200	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr14:35672000-35742200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr14:35672200-35674800	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr14:35672200-35690200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr14:35672200-35700000	Weak transcription	Thymus	Thymus
39	chr14:35672600-35674000	Enhancers	HepG2	liver
40	chr14:35672800-35674000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr14:35673000-35673800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr14:35673000-35673800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr14:35673200-35674200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
44	chr14:35673200-35674200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr14:35673200-35674400	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr14:35673200-35688400	Weak transcription	Fetal Thymus	thymus
47	chr14:35673400-35673600	Enhancers	Primary T helper naive cells from peripheral blood	blood
48	chr14:35673400-35673600	Weak transcription	A549	lung
49	chr14:35673400-35674200	Enhancers	Primary T cells from cord blood	blood
50	chr14:35673400-35688200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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