Variant report

Variant	rs62001129
Chromosome Location	chr14:39510173-39510174
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	chr14:39507492..39510436-chr14:39510983..39512776,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10872914	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10872915	0.92[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs11157039	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11157040	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11620885	0.92[AFR][1000 genomes]
rs12184985	0.92[AFR][1000 genomes]
rs12432236	0.80[EUR][1000 genomes]
rs12435383	0.80[EUR][1000 genomes]
rs17108710	0.93[ASN][1000 genomes]
rs17108729	0.93[ASN][1000 genomes]
rs17108735	0.93[ASN][1000 genomes]
rs17108737	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17616038	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17616116	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17678780	0.92[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1884385	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2038358	0.84[ASN][1000 genomes]
rs2415523	0.93[ASN][1000 genomes]
rs4902326	0.84[ASN][1000 genomes]
rs56869057	0.93[ASN][1000 genomes]
rs57014289	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57049071	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs57120608	0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs58589656	0.90[ASN][1000 genomes]
rs60444423	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61999361	0.80[EUR][1000 genomes]
rs7157388	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8005437	0.93[ASN][1000 genomes]
rs8007642	0.90[ASN][1000 genomes]
rs970622	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3429206	chr14:39160730-39648836	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv1038622	chr14:39423562-39604035	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking 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	26 gene(s)	inside rSNPs	diseases
3	nsv564417	chr14:39452317-39535560	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39495400-39518200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr14:39495800-39516000	Weak transcription	Stomach Mucosa	stomach
3	chr14:39496000-39514800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr14:39496000-39520400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr14:39497400-39518000	Strong transcription	HSMM	muscle
6	chr14:39497400-39519200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr14:39497800-39520400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr14:39497800-39521200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr14:39498000-39518400	Strong transcription	Osteobl	bone
10	chr14:39498000-39518600	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr14:39498000-39524200	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr14:39498200-39510200	Strong transcription	Placenta	Placenta
13	chr14:39498200-39519400	Strong transcription	NH-A	brain
14	chr14:39498200-39524200	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr14:39498200-39524400	Strong transcription	Fetal Intestine Large	intestine
16	chr14:39498400-39520000	Strong transcription	HepG2	liver
17	chr14:39498400-39524800	Weak transcription	K562	blood
18	chr14:39498600-39518000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr14:39498600-39519600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr14:39498600-39524000	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr14:39498600-39524800	Strong transcription	Adipose Nuclei	Adipose
22	chr14:39499000-39510200	Strong transcription	NHDF-Ad	bronchial
23	chr14:39499000-39510400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr14:39499000-39510400	Strong transcription	Rectal Mucosa Donor 29	rectum
25	chr14:39499000-39510400	Strong transcription	Rectal Mucosa Donor 31	rectum
26	chr14:39499000-39523200	Strong transcription	Primary neutrophils fromperipheralblood	blood
27	chr14:39499000-39523600	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr14:39499000-39524200	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr14:39499000-39524800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr14:39499000-39524800	Strong transcription	Duodenum Smooth Muscle	Duodenum
31	chr14:39499000-39525000	Strong transcription	Liver	Liver
32	chr14:39499600-39524600	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr14:39500000-39512600	Weak transcription	Aorta	Aorta
34	chr14:39500000-39519800	Weak transcription	Pancreas	Pancrea
35	chr14:39500000-39521000	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr14:39500000-39522800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr14:39500000-39524400	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr14:39500000-39524800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr14:39500000-39525000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr14:39500200-39515200	Weak transcription	Lung	lung
41	chr14:39500200-39515800	Weak transcription	Esophagus	oesophagus
42	chr14:39500200-39518600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr14:39500200-39519400	Weak transcription	Gastric	stomach
44	chr14:39500200-39523000	Weak transcription	Spleen	Spleen
45	chr14:39500400-39519800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr14:39501400-39513400	Strong transcription	Primary T cells from cord blood	blood
47	chr14:39501400-39524800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr14:39502000-39518400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr14:39502200-39510200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr14:39502400-39510200	Strong transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links