Variant report

Variant	rs7154548
Chromosome Location	chr14:56086190-56086191
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	chr14:56046049..56048917-chr14:56082832..56086431,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FBXO34-2	chr14:56085742-56087778	ucscGeneNc_uc001xci_2

Variant related genes	Relation type
ENSG00000186615	Chromatin interaction
ENSG00000126777	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10146870	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10444721	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10483644	0.81[ASN][1000 genomes]
rs10483649	0.94[ASN][1000 genomes]
rs10483651	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12432887	0.80[ASN][1000 genomes]
rs12433592	0.95[ASN][1000 genomes]
rs12434609	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12434624	0.80[ASN][1000 genomes]
rs12434799	0.94[ASN][1000 genomes]
rs12587735	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12588172	0.87[EUR][1000 genomes]
rs12882850	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12891129	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12891526	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12893162	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12895070	0.94[ASN][1000 genomes]
rs12895366	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12897227	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17128610	0.89[ASN][1000 genomes]
rs17128614	0.88[ASN][1000 genomes]
rs17128655	0.94[ASN][1000 genomes]
rs17128657	0.80[ASN][1000 genomes]
rs17253737	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17684916	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17684959	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17685650	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1951887	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1951889	0.81[ASN][1000 genomes]
rs1951890	0.87[ASN][1000 genomes]
rs2093800	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2274076	0.81[ASN][1000 genomes]
rs2274078	0.80[ASN][1000 genomes]
rs2274079	0.80[ASN][1000 genomes]
rs2296183	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2341889	0.85[ASN][1000 genomes]
rs28581272	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34111199	0.81[ASN][1000 genomes]
rs34118806	0.94[ASN][1000 genomes]
rs34133022	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34184813	0.94[ASN][1000 genomes]
rs34408323	0.81[ASN][1000 genomes]
rs34706911	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34709110	0.81[ASN][1000 genomes]
rs34853759	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34931260	0.89[ASN][1000 genomes]
rs34982220	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35047443	0.88[ASN][1000 genomes]
rs35420484	0.88[ASN][1000 genomes]
rs35451981	0.88[ASN][1000 genomes]
rs35531912	0.86[ASN][1000 genomes]
rs35560341	0.95[ASN][1000 genomes]
rs35790844	0.94[ASN][1000 genomes]
rs4457912	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55760841	0.88[ASN][1000 genomes]
rs55927221	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61381603	0.95[ASN][1000 genomes]
rs6573051	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6573053	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6573054	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68127620	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7150285	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7156566	0.81[ASN][1000 genomes]
rs7158176	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72719463	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8006443	0.93[ASN][1000 genomes]
rs8007183	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8007832	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8008764	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8011252	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv901961	chr14:55853724-56101879	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv901962	chr14:55862956-56101879	Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv901964	chr14:55871452-56101879	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
4	nsv1051564	chr14:55895610-56130788	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv542103	chr14:55895610-56130788	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv901965	chr14:55976428-56101879	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv832804	chr14:56083850-56277632	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:56066600-56086200	Weak transcription	Fetal Intestine Small	intestine
2	chr14:56066600-56086200	Weak transcription	Gastric	stomach
3	chr14:56066800-56086200	Weak transcription	Fetal Stomach	stomach
4	chr14:56068600-56086200	Weak transcription	Spleen	Spleen
5	chr14:56068600-56086600	Weak transcription	Lung	lung
6	chr14:56069600-56086800	Weak transcription	Pancreas	Pancrea
7	chr14:56070400-56086200	Weak transcription	Aorta	Aorta
8	chr14:56071800-56086200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr14:56072400-56086200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr14:56076600-56086200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr14:56077000-56086200	Weak transcription	NHLF	lung
12	chr14:56077800-56087800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr14:56077800-56092000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr14:56078600-56148600	Weak transcription	Stomach Mucosa	stomach
15	chr14:56078800-56095400	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr14:56079000-56086800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr14:56079000-56086800	Strong transcription	Fetal Intestine Large	intestine
18	chr14:56079000-56089000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr14:56079000-56091000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr14:56079200-56095200	Strong transcription	Primary T cells from cord blood	blood
21	chr14:56079800-56088400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr14:56079800-56111400	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr14:56080200-56086600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr14:56080200-56097800	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr14:56080400-56086400	Strong transcription	Fetal Muscle Trunk	muscle
26	chr14:56080600-56086800	Strong transcription	Fetal Thymus	thymus
27	chr14:56080600-56091800	Strong transcription	Rectal Mucosa Donor 31	rectum
28	chr14:56080800-56087000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
29	chr14:56080800-56110800	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr14:56081000-56086800	Strong transcription	Liver	Liver
31	chr14:56081200-56086200	Strong transcription	Primary monocytes fromperipheralblood	blood
32	chr14:56081200-56090400	Strong transcription	Adipose Nuclei	Adipose
33	chr14:56081600-56090000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr14:56081800-56086200	Weak transcription	Esophagus	oesophagus
35	chr14:56082200-56091000	Strong transcription	Placenta	Placenta
36	chr14:56082400-56090200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr14:56082400-56091800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr14:56082400-56092000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr14:56082600-56086600	Strong transcription	Duodenum Mucosa	Duodenum
40	chr14:56082600-56086800	Strong transcription	Skeletal Muscle Female	skeletal muscle
41	chr14:56082600-56089600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr14:56082600-56091800	Strong transcription	Duodenum Smooth Muscle	Duodenum
43	chr14:56082800-56086200	Strong transcription	Cortex derived primary cultured neurospheres	brain
44	chr14:56082800-56088000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
45	chr14:56082800-56088400	Strong transcription	Fetal Lung	lung
46	chr14:56082800-56090000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr14:56082800-56090200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr14:56082800-56090400	Strong transcription	Osteobl	bone
49	chr14:56082800-56090600	Strong transcription	NHEK	skin
50	chr14:56082800-56091800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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