Variant report

Variant	rs59954445
Chromosome Location	chr14:35651715-35651716
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PPP2R3C-3	chr14:35651558-35651951	uc_373_-
2	lnc-FAM177A1-4	chr14:35651558-35651951	uc_373_+

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10130007	0.85[AMR][1000 genomes]
rs10132938	0.85[AMR][1000 genomes]
rs10133402	0.85[AMR][1000 genomes]
rs10134666	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10136494	0.85[AMR][1000 genomes]
rs10137095	0.85[AMR][1000 genomes]
rs10137488	0.85[AMR][1000 genomes]
rs10140985	0.85[AMR][1000 genomes]
rs10141688	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10143083	0.85[AMR][1000 genomes]
rs10146661	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10148143	0.85[AMR][1000 genomes]
rs10148234	0.85[AMR][1000 genomes]
rs10148868	0.85[AMR][1000 genomes]
rs10148872	0.84[EUR][1000 genomes]
rs10149412	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10467707	0.85[AMR][1000 genomes]
rs10715	0.85[AMR][1000 genomes]
rs11156873	0.90[EUR][1000 genomes]
rs11156879	0.85[AMR][1000 genomes]
rs11547365	0.85[AMR][1000 genomes]
rs11846149	0.84[AFR][1000 genomes]
rs11847892	0.96[AFR][1000 genomes]
rs11851831	1.00[EUR][1000 genomes]
rs12323542	0.85[AMR][1000 genomes]
rs13393	0.85[AMR][1000 genomes]
rs2415281	0.85[AMR][1000 genomes]
rs28403535	0.90[EUR][1000 genomes]
rs28460322	0.85[AMR][1000 genomes]
rs28625199	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs45447399	0.85[EUR][1000 genomes]
rs55747728	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56762985	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57606486	0.85[AMR][1000 genomes]
rs58058174	0.85[AMR][1000 genomes]
rs58177251	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59708026	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60206834	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7141690	1.00[AMR][1000 genomes]
rs7141912	0.96[AFR][1000 genomes]
rs7144747	0.90[AFR][1000 genomes]
rs7145488	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7154775	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7158592	1.00[AMR][1000 genomes]
rs74043845	0.83[AFR][1000 genomes]
rs8004205	0.85[AMR][1000 genomes]
rs9322944	0.85[AMR][1000 genomes]
rs9322945	0.85[AMR][1000 genomes]
rs9322946	0.85[AMR][1000 genomes]
rs9652275	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 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
20	nsv1046680	chr14:35608347-35665374	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:35593000-35660400	Weak transcription	Stomach Smooth Muscle	stomach
2	chr14:35603200-35663400	Weak transcription	Fetal Lung	lung
3	chr14:35604400-35651800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr14:35604400-35660200	Weak transcription	Aorta	Aorta
5	chr14:35604600-35667400	Weak transcription	Spleen	Spleen
6	chr14:35607400-35662000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr14:35607600-35661200	Weak transcription	Fetal Muscle Leg	muscle
8	chr14:35612000-35659800	Weak transcription	Fetal Muscle Trunk	muscle
9	chr14:35625600-35662200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr14:35625600-35662600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr14:35626400-35658000	Weak transcription	Fetal Brain Female	brain
12	chr14:35628600-35670200	Weak transcription	Thymus	Thymus
13	chr14:35628600-35672000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr14:35629000-35660600	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr14:35629600-35666000	Weak transcription	HSMM	muscle
16	chr14:35630000-35665800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr14:35630200-35665000	Weak transcription	Fetal Kidney	kidney
18	chr14:35630600-35665600	Weak transcription	Hela-S3	cervix
19	chr14:35630600-35665600	Weak transcription	HMEC	breast
20	chr14:35630600-35670200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr14:35630800-35665600	Weak transcription	Small Intestine	intestine
22	chr14:35630800-35665600	Weak transcription	HUVEC	blood vessel
23	chr14:35630800-35665800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr14:35633800-35651800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr14:35634400-35660600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr14:35636200-35662800	Weak transcription	NH-A	brain
27	chr14:35636800-35661200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr14:35637000-35661400	Weak transcription	NHDF-Ad	bronchial
29	chr14:35637000-35670200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr14:35637600-35662600	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr14:35637800-35662400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr14:35638600-35665400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr14:35639200-35653600	Weak transcription	Primary hematopoietic stem cells	blood
34	chr14:35639200-35662600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr14:35643400-35658200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr14:35643400-35660200	Weak transcription	Lung	lung
37	chr14:35643400-35660400	Weak transcription	Fetal Stomach	stomach
38	chr14:35643400-35660600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr14:35643400-35662000	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr14:35643400-35663000	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr14:35643400-35664400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr14:35643400-35665800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr14:35643400-35671800	Weak transcription	Fetal Thymus	thymus
44	chr14:35643400-35724000	Weak transcription	Left Ventricle	heart
45	chr14:35643800-35653600	Weak transcription	Primary T cells from cord blood	blood
46	chr14:35643800-35660200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr14:35643800-35665800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr14:35644000-35659800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr14:35644000-35660200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr14:35644000-35660600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links