Variant report

Variant	rs10139492
Chromosome Location	chr14:78156657-78156658
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:78154902..78157817-chr14:78159503..78162489,4	MCF-7	breast:
2	chr14:78136536..78139253-chr14:78155471..78158284,2	MCF-7	breast:

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs1006038	0.90[CHB][hapmap]
rs1006039	0.91[CHB][hapmap]
rs1006040	0.90[CHB][hapmap]
rs1008988	0.95[CHB][hapmap]
rs10134425	0.93[ASN][1000 genomes]
rs10138747	0.87[ASN][1000 genomes]
rs10142722	0.90[CHB][hapmap]
rs10143249	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10143294	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10144448	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10146255	0.87[ASN][1000 genomes]
rs1048147	0.90[CHB][hapmap]
rs10483885	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs114763	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11621719	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11622761	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11624103	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11624118	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11628838	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11628888	0.85[CHB][hapmap]
rs12879880	0.88[ASN][1000 genomes]
rs12885306	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs12887313	0.87[ASN][1000 genomes]
rs12890728	0.85[CHB][hapmap]
rs12890828	0.82[ASN][1000 genomes]
rs1477262	0.90[CHB][hapmap]
rs1477263	0.88[ASN][1000 genomes]
rs1477264	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17106157	0.91[CHB][hapmap]
rs176941	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs176943	0.90[CHB][hapmap]
rs176946	0.90[CHB][hapmap]
rs176947	0.90[ASN][1000 genomes]
rs176948	0.95[ASN][1000 genomes]
rs176951	0.91[CHB][hapmap]
rs176954	0.95[ASN][1000 genomes]
rs176955	0.90[CHB][hapmap]
rs176956	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs176959	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs176961	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs176963	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs176964	0.91[CHB][hapmap];0.93[ASN][1000 genomes]
rs176965	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs176968	0.93[ASN][1000 genomes]
rs176969	0.93[ASN][1000 genomes]
rs176970	0.93[ASN][1000 genomes]
rs176972	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs176975	0.93[ASN][1000 genomes]
rs176976	0.93[ASN][1000 genomes]
rs176977	0.90[ASN][1000 genomes]
rs176980	0.90[CHB][hapmap]
rs2080703	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2111831	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2267756	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2267759	0.91[CHB][hapmap]
rs2267760	0.90[CHB][hapmap]
rs2267761	0.91[CHB][hapmap]
rs2267762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2267763	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2267764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2267766	0.84[ASN][1000 genomes]
rs2277917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2284233	0.92[ASN][1000 genomes]
rs2284234	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2284235	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2299930	0.90[CHB][hapmap]
rs3759728	0.90[CHB][hapmap]
rs3783980	0.90[CHB][hapmap]
rs3783981	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3783982	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4632066	0.90[CHB][hapmap]
rs4641655	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4899670	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4899673	1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs4899674	0.92[ASN][1000 genomes]
rs4903627	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4903638	0.88[ASN][1000 genomes]
rs61992863	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61992864	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61992867	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61992868	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6574392	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6574394	0.91[ASN][1000 genomes]
rs6574399	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6574404	0.85[CHB][hapmap]
rs7141469	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7142262	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7142390	0.91[CHB][hapmap]
rs7143075	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7143926	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs7145717	0.88[ASN][1000 genomes]
rs7148078	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs7148126	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7150531	0.84[ASN][1000 genomes]
rs7151685	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7154571	0.85[ASN][1000 genomes]
rs7159821	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7159992	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7160003	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7160355	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs717682	0.85[ASN][1000 genomes]
rs759713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8003691	0.90[CHB][hapmap]
rs8010541	0.91[ASN][1000 genomes]
rs8011337	0.90[CHB][hapmap]
rs8015645	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8016447	0.90[CHB][hapmap]
rs8022516	0.92[ASN][1000 genomes]
rs9323649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9323650	0.90[CHB][hapmap]
rs9323651	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9788619	0.84[AMR][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	esv2758362	chr14:78074180-78262572	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	esv2759998	chr14:78074180-78262572	Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Weak transcription Bivalent Enhancer 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	33 gene(s)	inside rSNPs	diseases
3	esv2757575	chr14:78104897-78212462	Strong transcription Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	esv34940	chr14:78104897-78222798	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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	27 gene(s)	inside rSNPs	diseases
5	nsv521287	chr14:78108003-78211225	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv869872	chr14:78119527-78161340	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv520021	chr14:78152921-78208294	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 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	chr14:78127400-78173200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr14:78128000-78157800	Weak transcription	Fetal Brain Male	brain
3	chr14:78134400-78163400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr14:78136200-78162800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr14:78137800-78161200	Weak transcription	Fetal Heart	heart
6	chr14:78138000-78171800	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr14:78140400-78157800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr14:78140400-78160400	Weak transcription	Fetal Kidney	kidney
9	chr14:78140400-78172400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr14:78140600-78158600	Weak transcription	Esophagus	oesophagus
11	chr14:78140600-78173200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr14:78141200-78160400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr14:78141200-78162800	Weak transcription	Colonic Mucosa	Colon
14	chr14:78141400-78157400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr14:78142200-78157600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr14:78142200-78161200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr14:78142600-78162200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr14:78142600-78162800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr14:78145400-78158600	Weak transcription	Spleen	Spleen
20	chr14:78146400-78157800	Weak transcription	Fetal Lung	lung
21	chr14:78146400-78160000	Weak transcription	Brain Hippocampus Middle	brain
22	chr14:78146400-78161800	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr14:78147000-78157800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr14:78148200-78158600	Weak transcription	Gastric	stomach
25	chr14:78148400-78157800	Weak transcription	Brain Angular Gyrus	brain
26	chr14:78148400-78158400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr14:78148400-78158600	Weak transcription	Brain Cingulate Gyrus	brain
28	chr14:78148400-78162800	Weak transcription	Aorta	Aorta
29	chr14:78148400-78162800	Weak transcription	Pancreas	Pancrea
30	chr14:78148400-78164400	Weak transcription	Psoas Muscle	Psoas
31	chr14:78148600-78157800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr14:78148600-78158200	Weak transcription	Rectal Smooth Muscle	rectum
33	chr14:78148600-78158400	Weak transcription	Colon Smooth Muscle	Colon
34	chr14:78148600-78162800	Weak transcription	NHLF	lung
35	chr14:78149000-78157400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr14:78149000-78157600	Weak transcription	HMEC	breast
37	chr14:78149000-78158400	Weak transcription	NHEK	skin
38	chr14:78149000-78160400	Weak transcription	Hela-S3	cervix
39	chr14:78149200-78163800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr14:78149200-78171400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr14:78149800-78158600	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr14:78149800-78163000	Weak transcription	Stomach Mucosa	stomach
43	chr14:78149800-78164200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr14:78150200-78163800	Strong transcription	Fetal Muscle Leg	muscle
45	chr14:78150400-78172200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr14:78150600-78158000	Weak transcription	HepG2	liver
47	chr14:78152200-78158800	Weak transcription	Fetal Intestine Small	intestine
48	chr14:78152200-78164200	Strong transcription	Liver	Liver
49	chr14:78152200-78164600	Strong transcription	Adipose Nuclei	Adipose
50	chr14:78152400-78171200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links