Variant report

Variant	rs60187408
Chromosome Location	chr14:105495663-105495664
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	chr14:105441966..105444390-chr14:105493852..105497490,3	MCF-7	breast:
2	chr14:105455194..105456749-chr14:105493556..105495822,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C14orf79-3	chr14:105495648-105498282	NONHSAT040315

Variant related genes	Relation type
ENSG00000140104	Chromatin interaction

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

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

rs_ID	r²[population]
rs10134401	1.00[EUR][1000 genomes]
rs10136020	1.00[EUR][1000 genomes]
rs10136468	1.00[EUR][1000 genomes]
rs10136591	1.00[EUR][1000 genomes]
rs10139800	1.00[EUR][1000 genomes]
rs11850764	1.00[EUR][1000 genomes]
rs11850814	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1866828	1.00[EUR][1000 genomes]
rs1982232	1.00[EUR][1000 genomes]
rs2582566	1.00[EUR][1000 genomes]
rs2582571	1.00[EUR][1000 genomes]
rs2582572	1.00[EUR][1000 genomes]
rs2582573	1.00[EUR][1000 genomes]
rs2582576	1.00[EUR][1000 genomes]
rs2819465	1.00[EUR][1000 genomes]
rs2819466	1.00[EUR][1000 genomes]
rs28844034	1.00[EUR][1000 genomes]
rs4559849	1.00[EUR][1000 genomes]
rs56975679	1.00[EUR][1000 genomes]
rs57999316	1.00[EUR][1000 genomes]
rs60541549	1.00[EUR][1000 genomes]
rs61557687	1.00[EUR][1000 genomes]
rs6576070	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7141355	1.00[EUR][1000 genomes]
rs7143587	1.00[EUR][1000 genomes]
rs73363371	1.00[EUR][1000 genomes]
rs8008799	0.84[AFR][1000 genomes];1.00[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	esv1828345	chr14:105100787-105803170	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	nsv542225	chr14:105133688-105803170	Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv542227	chr14:105157572-105803170	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	147 gene(s)	inside rSNPs	diseases
4	nsv917106	chr14:105339195-105803170	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
5	nsv456457	chr14:105404384-105555396	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
6	nsv566141	chr14:105404384-105555396	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
7	nsv902421	chr14:105410183-105574843	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
8	nsv902422	chr14:105420215-105803170	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
9	nsv1052190	chr14:105423761-105722653	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
10	nsv902423	chr14:105430890-105803170	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
11	nsv1042303	chr14:105435649-105633544	Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
12	nsv456458	chr14:105435649-105690092	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
13	nsv566150	chr14:105435649-105690092	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
14	nsv902424	chr14:105436222-105803170	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
15	nsv566151	chr14:105459140-105555396	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
16	nsv456459	chr14:105459140-105617891	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
17	nsv566152	chr14:105459140-105617891	Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats 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 miRNA target site	55 gene(s)	inside rSNPs	diseases
18	nsv902425	chr14:105463936-105690092	Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
19	nsv983941	chr14:105485574-105534240	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 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	chr14:105488400-105496600	Weak transcription	Esophagus	oesophagus
2	chr14:105488400-105497400	Weak transcription	Gastric	stomach
3	chr14:105488600-105499200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr14:105488600-105499200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr14:105488800-105499000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr14:105488800-105499000	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr14:105488800-105499200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr14:105488800-105499400	Weak transcription	Pancreas	Pancrea
9	chr14:105488800-105499800	Weak transcription	Spleen	Spleen
10	chr14:105489000-105497200	Weak transcription	Fetal Heart	heart
11	chr14:105489000-105499200	Weak transcription	Primary T cells from cord blood	blood
12	chr14:105489000-105499200	Weak transcription	Fetal Intestine Small	intestine
13	chr14:105489200-105499000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr14:105489600-105499200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr14:105490600-105496400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr14:105490600-105496600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr14:105490800-105499000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr14:105491400-105499000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr14:105492000-105499200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr14:105492000-105499400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr14:105492000-105499400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr14:105492000-105499600	Weak transcription	HSMMtube	muscle
23	chr14:105492200-105499200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr14:105492600-105499200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr14:105493000-105499200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr14:105493800-105498800	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr14:105493800-105498800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr14:105493800-105499200	Weak transcription	Primary B cells from peripheral blood	blood
29	chr14:105493800-105499200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr14:105493800-105499200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr14:105493800-105499200	Weak transcription	HUVEC	blood vessel
32	chr14:105494000-105499000	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr14:105494000-105499200	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr14:105494400-105499200	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr14:105494600-105499200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr14:105494600-105499200	Weak transcription	A549	lung
37	chr14:105494800-105496600	Weak transcription	HMEC	breast
38	chr14:105495000-105496400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr14:105495000-105497200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr14:105495000-105497200	Weak transcription	K562	blood
41	chr14:105495000-105498600	Weak transcription	NH-A	brain
42	chr14:105495000-105499000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr14:105495000-105499000	Weak transcription	Osteobl	bone
44	chr14:105495000-105499200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr14:105495000-105499400	Weak transcription	GM12878-XiMat	blood
46	chr14:105495200-105496200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr14:105495200-105496600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr14:105495200-105499000	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr14:105495200-105499200	Weak transcription	NHDF-Ad	bronchial
50	chr14:105495400-105496400	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links