Variant report

Variant	rs12587021
Chromosome Location	chr14:35275853-35275854
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:35265992..35268541-chr14:35273721..35276844,3	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10136352	0.80[JPT][hapmap]
rs10147130	0.85[EUR][1000 genomes]
rs10147134	0.85[EUR][1000 genomes]
rs10150083	0.80[CHB][hapmap];0.83[JPT][hapmap]
rs10150856	0.85[EUR][1000 genomes]
rs11847610	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1200414	0.81[JPT][hapmap]
rs12431818	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12432567	0.92[ASN][1000 genomes]
rs12433706	0.96[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12435778	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12435859	0.83[AFR][1000 genomes]
rs12586459	0.91[ASN][1000 genomes]
rs12586462	0.92[ASN][1000 genomes]
rs12587251	0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12587390	0.83[CHB][hapmap];0.83[YRI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12587913	0.93[ASN][1000 genomes]
rs12588318	0.89[ASN][1000 genomes]
rs12590112	0.89[JPT][hapmap]
rs12590268	0.95[ASN][1000 genomes]
rs13379337	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs1400745	0.89[JPT][hapmap]
rs17102726	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17102768	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17102795	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.94[ASN][1000 genomes]
rs17102829	0.90[JPT][hapmap]
rs17526787	0.96[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes]
rs17526884	0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1959154	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2295468	0.89[ASN][1000 genomes]
rs2383675	0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2383676	0.92[ASN][1000 genomes]
rs2383677	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs34072166	0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.93[ASN][1000 genomes]
rs34245772	0.97[ASN][1000 genomes]
rs3783315	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3783316	0.80[JPT][hapmap]
rs5016735	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55979964	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56975955	0.85[EUR][1000 genomes]
rs58268256	0.97[ASN][1000 genomes]
rs58587072	0.96[ASN][1000 genomes]
rs59092668	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs59678582	0.83[AFR][1000 genomes]
rs61981198	0.90[ASN][1000 genomes]
rs61981200	0.91[ASN][1000 genomes]
rs61981201	0.85[EUR][1000 genomes]
rs61981202	0.92[ASN][1000 genomes]
rs61981204	0.86[ASN][1000 genomes]
rs61981228	0.92[ASN][1000 genomes]
rs61981232	0.94[ASN][1000 genomes]
rs61981234	1.00[ASN][1000 genomes]
rs61981236	1.00[ASN][1000 genomes]
rs61981237	1.00[ASN][1000 genomes]
rs61988010	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61988011	0.85[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs61988012	0.98[ASN][1000 genomes]
rs61988013	0.97[ASN][1000 genomes]
rs61988044	0.93[ASN][1000 genomes]
rs61988045	0.91[ASN][1000 genomes]
rs7142012	0.93[ASN][1000 genomes]
rs7148400	0.80[JPT][hapmap]
rs7150069	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7153289	0.88[CHB][hapmap];0.90[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs7155348	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8005470	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8005659	0.87[CHB][hapmap];0.83[JPT][hapmap];0.91[YRI][hapmap]
rs8009900	0.83[EUR][1000 genomes]
rs8010504	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8010579	0.88[CHB][hapmap];0.84[JPT][hapmap]
rs8013484	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3392700	chr14:34989406-35365530	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
2	nsv1041857	chr14:35084889-35417180	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1051540	chr14:35200858-35278635	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1052162	chr14:35245349-35451187	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	nsv1053722	chr14:35257458-35465784	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:35221400-35280800	Strong transcription	Primary T helper cells PMA-I stimulated	--
2	chr14:35231200-35291800	Weak transcription	Fetal Brain Male	brain
3	chr14:35232600-35293200	Weak transcription	Fetal Kidney	kidney
4	chr14:35234200-35276000	Weak transcription	Brain Hippocampus Middle	brain
5	chr14:35234200-35311600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr14:35251600-35276000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr14:35251600-35284000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr14:35252200-35301000	Weak transcription	Psoas Muscle	Psoas
9	chr14:35252600-35277800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr14:35257400-35282000	Strong transcription	Fetal Thymus	thymus
11	chr14:35258800-35277400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr14:35260400-35283400	Strong transcription	Dnd41	blood
13	chr14:35262400-35279400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr14:35262600-35276800	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr14:35262600-35283200	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr14:35262600-35283800	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr14:35264800-35276600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr14:35265000-35278200	Weak transcription	Brain Substantia Nigra	brain
19	chr14:35265000-35296000	Weak transcription	Colon Smooth Muscle	Colon
20	chr14:35266600-35276600	Strong transcription	Fetal Muscle Leg	muscle
21	chr14:35266800-35277000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr14:35267000-35276800	Strong transcription	Duodenum Mucosa	Duodenum
23	chr14:35267800-35277600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr14:35267800-35292200	Weak transcription	Right Ventricle	heart
25	chr14:35268600-35280600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr14:35268800-35277000	Strong transcription	Rectal Mucosa Donor 31	rectum
27	chr14:35269000-35282600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr14:35269200-35277200	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr14:35269200-35298000	Weak transcription	Ovary	ovary
30	chr14:35269400-35322200	Weak transcription	Fetal Brain Female	brain
31	chr14:35269400-35341600	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr14:35269600-35276000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr14:35269800-35290000	Weak transcription	Placenta	Placenta
34	chr14:35270200-35286800	Weak transcription	Fetal Heart	heart
35	chr14:35270400-35303400	Weak transcription	Stomach Mucosa	stomach
36	chr14:35270800-35277200	Strong transcription	Fetal Intestine Large	intestine
37	chr14:35271800-35291400	Weak transcription	Spleen	Spleen
38	chr14:35271800-35326400	Weak transcription	Esophagus	oesophagus
39	chr14:35272000-35290000	Weak transcription	Small Intestine	intestine
40	chr14:35272000-35296200	Weak transcription	Brain Germinal Matrix	brain
41	chr14:35272200-35279400	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr14:35272200-35279400	Weak transcription	NH-A	brain
43	chr14:35272200-35291200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr14:35272400-35276000	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr14:35272400-35276000	Weak transcription	NHEK	skin
46	chr14:35272400-35276000	Weak transcription	NHLF	lung
47	chr14:35272400-35277200	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr14:35272400-35278600	Weak transcription	Stomach Smooth Muscle	stomach
49	chr14:35272400-35279400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr14:35272400-35290800	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links